Citrus Sinensis ID: 045379

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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-------330-------340-------350--
Protein Sequence
CRASNSTGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVELSVKHYPA
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHcccccccccccccHHHHHHHHHHHcccccccccccHHHHcccccccHHHHHHHHHHHHHHHcHHHHHHHccccccccEEHHHHHHHHHHccccccccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHccccccEEHHHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHHcHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
crasnstgvsvkkynrdgffidkngklrsfnhkklsrkrcgslrgkgwkygsgfvdgifpvlspTAQQILRFVQREvdsntiwdafdslppthatwdDLINVSVQLRlnkkwdpivLMSCVSILLIEAYGqkslhkkaEFTYLElldsrcipteDTYALLLKAYCMSGLLEKAEAVFREMRkyglppsavVYNSYIDgllkggnpQKAVEIFQRMkrdccqpstETYTLMINLYGKASKSFMALKLFNemrshkckpnictYTALVNAFAREGLCEEAEEIFEQLqgagiepdVYAYNALMEAYRLISRMhmgcepdrasYNIMVDAYgraglhegkcsySLVELSVKHYPA
Flexible Loop (DISEMBL)
crasnstgvsvkkynrdgffidkngklrsfnhkklsrkrcgslrgkgwkYGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSyslvelsvkhypa
Low Complexity Region (SEG)
CRASNSTGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVELSVKHYPA
Disordered region (IsUnstruct)
*************YNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVELSV*****
Disordered Region (DISOPRED)
******TGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVELSVKHYP*
Disordered Region (DISEMBL)
*********SVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVELSVKHYPA
Disordered Region (DISPRO)
CRASNSTGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVELSV*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
CRASNSTGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVELSVKHYPA
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	352	2.2.26 [Sep-21-2011]
O82178	591	Pentatricopeptide repeat-	yes	no	0.940	0.560	0.648	1e-134
P0C894	761	Putative pentatricopeptid	no	no	0.5	0.231	0.336	6e-27
Q9CAN5	614	Pentatricopeptide repeat-	no	no	0.599	0.343	0.306	5e-25
Q9S7Q2	862	Pentatricopeptide repeat-	no	no	0.519	0.212	0.323	1e-24
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.596	0.351	0.294	4e-24
O64624	822	Pentatricopeptide repeat-	no	no	0.704	0.301	0.276	5e-24
Q9LYZ9	819	Pentatricopeptide repeat-	no	no	0.707	0.304	0.288	6e-24
Q9SH26	577	Pentatricopeptide repeat-	no	no	0.599	0.365	0.306	7e-24
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.599	0.334	0.301	7e-24
Q9LW84	642	Pentatricopeptide repeat-	no	no	0.707	0.387	0.251	9e-24

>sp|O82178|PP186_ARATH Pentatricopeptide repeat-containing protein At2g35130 OS=Arabidopsis thaliana GN=At2g35130 PE=2 SV=1

 Score =  479 bits (1233), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 234/361 (64%), Positives = 283/361 (78%), Gaps = 30/361 (8%)

Query: 3   ASNSTGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPVL 62
            +N  G +VK Y ++GF ID+ GKL+ FN KKLSRKRCGSLRG+GWKYGSGFVDGIFPVL
Sbjct: 26  VTNLNGATVKSYKQEGFVIDERGKLKRFNRKKLSRKRCGSLRGRGWKYGSGFVDGIFPVL 85

Query: 63  SPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVS 122
           SP AQ+IL F+Q+E D + + D   +LP THA+WDDLINVSVQLRLNKKWD I+L+ C  
Sbjct: 86  SPIAQKILSFIQKETDPDKVADVLGALPSTHASWDDLINVSVQLRLNKKWDSIILV-CEW 144

Query: 123 IL--------------LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSG 168
           IL              LI+AYGQK  +K+AE  Y++LL+SR +PTEDTYALL+KAYCM+G
Sbjct: 145 ILRKSSFQPDVICFNLLIDAYGQKFQYKEAESLYVQLLESRYVPTEDTYALLIKAYCMAG 204

Query: 169 LLEKAEAVFREMRKYGLPPSAV---VYNSYIDGLLK-GGNPQKAVEIFQRMKRDCCQPST 224
           L+E+AE V  EM+ + + P  +   VYN+YI+GL+K  GN ++A+++FQRMKRD C+P+T
Sbjct: 205 LIERAEVVLVEMQNHHVSPKTIGVTVYNAYIEGLMKRKGNTEEAIDVFQRMKRDRCKPTT 264

Query: 225 ETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQ 284
           ETY LMINLYGKASKS+M+ KL+ EMRSH+CKPNICTYTALVNAFAREGLCE+AEEIFEQ
Sbjct: 265 ETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAFAREGLCEKAEEIFEQ 324

Query: 285 LQGAGIEPDVYAYNALMEAY----------RLISRM-HMGCEPDRASYNIMVDAYGRAGL 333
           LQ  G+EPDVY YNALME+Y           + S M HMGCEPDRASYNIMVDAYGRAGL
Sbjct: 325 LQEDGLEPDVYVYNALMESYSRAGYPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGRAGL 384

Query: 334 H 334
           H
Sbjct: 385 H 385

Arabidopsis thaliana (taxid: 3702)

>sp|P0C894|PP143_ARATH Putative pentatricopeptide repeat-containing protein At2g02150 OS=Arabidopsis thaliana GN=At2g02150 PE=3 SV=1

 Score =  122 bits (305), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 63/187 (33%), Positives = 102/187 (54%), Gaps = 11/187 (5%)

Query: 152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEI 211
           PT  TY +++   C  G +E A  +F EM+  GL P  V YNS IDG  K G     V  
Sbjct: 260 PTVFTYNIMIDCMCKEGDVEAARGLFEEMKFRGLVPDTVTYNSMIDGFGKVGRLDDTVCF 319

Query: 212 FQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR 271
           F+ MK  CC+P   TY  +IN + K  K  + L+ + EM+ +  KPN+ +Y+ LV+AF +
Sbjct: 320 FEEMKDMCCEPDVITYNALINCFCKFGKLPIGLEFYREMKGNGLKPNVVSYSTLVDAFCK 379

Query: 272 EGLCEEAEEIFEQLQGAGIEPDVYAYNALM----------EAYRLISRM-HMGCEPDRAS 320
           EG+ ++A + +  ++  G+ P+ Y Y +L+          +A+RL + M  +G E +  +
Sbjct: 380 EGMMQQAIKFYVDMRRVGLVPNEYTYTSLIDANCKIGNLSDAFRLGNEMLQVGVEWNVVT 439

Query: 321 YNIMVDA 327
           Y  ++D 
Sbjct: 440 YTALIDG 446

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN5|PPR98_ARATH Pentatricopeptide repeat-containing protein At1g63080, mitochondrial OS=Arabidopsis thaliana GN=At1g63080 PE=2 SV=1

 Score =  115 bits (288), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 68/222 (30%), Positives = 111/222 (50%), Gaps = 11/222 (4%)

Query: 125 LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG 184
           LI+A+ ++    +AE  + E++     P   TY  L+  +CM   L++A+ +F  M    
Sbjct: 316 LIDAFAKEGKLIEAEKLFDEMIQRSIDPNIVTYNSLINGFCMHDRLDEAQQIFTLMVSKD 375

Query: 185 LPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMAL 244
             P  V YN+ I+G  K       +E+F+ M R     +T TYT +I+ + +AS    A 
Sbjct: 376 CLPDVVTYNTLINGFCKAKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQ 435

Query: 245 KLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALME-- 302
            +F +M S    PNI TY  L++   + G  E+A  +FE LQ + +EPD+Y YN + E  
Sbjct: 436 MVFKQMVSDGVHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGM 495

Query: 303 --------AYRLISRMHM-GCEPDRASYNIMVDAYGRAGLHE 335
                    + L   + + G +PD  +YN M+  + + GL E
Sbjct: 496 CKAGKVEDGWDLFCSLSLKGVKPDVIAYNTMISGFCKKGLKE 537

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S7Q2|PP124_ARATH Pentatricopeptide repeat-containing protein At1g74850, chloroplastic OS=Arabidopsis thaliana GN=PTAC2 PE=2 SV=1

 Score =  114 bits (284), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 63/195 (32%), Positives = 99/195 (50%), Gaps = 12/195 (6%)

Query: 150 CIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAV 209
           C P E  Y +++      GLL+K   VF EM   G+  S   Y + I+   + G  + ++
Sbjct: 137 CKPNEHIYTIMISLLGREGLLDKCLEVFDEMPSQGVSRSVFSYTALINAYGRNGRYETSL 196

Query: 210 EIFQRMKRDCCQPSTETYTLMINLYGKASKSFMA-LKLFNEMRSHKCKPNICTYTALVNA 268
           E+  RMK +   PS  TY  +IN   +    +   L LF EMR    +P+I TY  L++A
Sbjct: 197 ELLDRMKNEKISPSILTYNTVINACARGGLDWEGLLGLFAEMRHEGIQPDIVTYNTLLSA 256

Query: 269 FAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCE-----------PD 317
            A  GL +EAE +F  +   GI PD+  Y+ L+E +  + R+   C+           PD
Sbjct: 257 CAIRGLGDEAEMVFRTMNDGGIVPDLTTYSHLVETFGKLRRLEKVCDLLGEMASGGSLPD 316

Query: 318 RASYNIMVDAYGRAG 332
             SYN++++AY ++G
Sbjct: 317 ITSYNVLLEAYAKSG 331

Involved in plastid gene expression.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  112 bits (280), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 65/221 (29%), Positives = 108/221 (48%), Gaps = 11/221 (4%)

Query: 124 LLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY 183
           +LI    +K L  +A     ++    C P   +Y  LL  +C    +++A      M   
Sbjct: 349 ILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSYNPLLHGFCKEKKMDRAIEYLERMVSR 408

Query: 184 GLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMA 243
           G  P  V YN+ +  L K G  + AVEI  ++    C P   TY  +I+   KA K+  A
Sbjct: 409 GCYPDIVTYNTMLTALCKDGKVEDAVEILNQLSSKGCSPVLITYNTVIDGLAKAGKTGKA 468

Query: 244 LKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALM-- 301
           +KL +EMR+   KP+  TY++LV   +REG  +EA + F + +  GI P+   +N++M  
Sbjct: 469 IKLLDEMRAKDLKPDTITYSSLVGGLSREGKVDEAIKFFHEFERMGIRPNAVTFNSIMLG 528

Query: 302 -----EAYR----LISRMHMGCEPDRASYNIMVDAYGRAGL 333
                +  R    L+  ++ GC+P+  SY I+++     G+
Sbjct: 529 LCKSRQTDRAIDFLVFMINRGCKPNETSYTILIEGLAYEGM 569

Arabidopsis thaliana (taxid: 3702)

>sp|O64624|PP163_ARATH Pentatricopeptide repeat-containing protein At2g18940 OS=Arabidopsis thaliana GN=At2g18940 PE=2 SV=1

 Score =  112 bits (279), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 74/268 (27%), Positives = 129/268 (48%), Gaps = 20/268 (7%)

Query: 77  VDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNK-KWDPIVLMSCVSILLIEAYGQKSLH 135
           V  N I D F  +     +W  ++ V  ++R    K+D     +C ++L   A  ++ L 
Sbjct: 246 VTYNVILDVFGKM---GRSWRKILGVLDEMRSKGLKFDEF---TCSTVL--SACAREGLL 297

Query: 136 KKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSY 195
           ++A+  + EL      P   TY  LL+ +  +G+  +A +V +EM +   P  +V YN  
Sbjct: 298 REAKEFFAELKSCGYEPGTVTYNALLQVFGKAGVYTEALSVLKEMEENSCPADSVTYNEL 357

Query: 196 IDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKC 255
           +   ++ G  ++A  + + M +    P+  TYT +I+ YGKA K   ALKLF  M+   C
Sbjct: 358 VAAYVRAGFSKEAAGVIEMMTKKGVMPNAITYTTVIDAYGKAGKEDEALKLFYSMKEAGC 417

Query: 256 KPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALME----------AYR 305
            PN CTY A+++   ++    E  ++   ++  G  P+   +N ++             R
Sbjct: 418 VPNTCTYNAVLSLLGKKSRSNEMIKMLCDMKSNGCSPNRATWNTMLALCGNKGMDKFVNR 477

Query: 306 LISRMHM-GCEPDRASYNIMVDAYGRAG 332
           +   M   G EPDR ++N ++ AYGR G
Sbjct: 478 VFREMKSCGFEPDRDTFNTLISAYGRCG 505

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LYZ9|PP362_ARATH Pentatricopeptide repeat-containing protein At5g02860 OS=Arabidopsis thaliana GN=At5g02860 PE=2 SV=1

 Score =  112 bits (279), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 78/270 (28%), Positives = 123/270 (45%), Gaps = 21/270 (7%)

Query: 87  DSLPPTHATWDDLINV----------SVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHK 136
           D   PT  T++ ++NV             L    K D I   +     LI    + SLH+
Sbjct: 237 DGCKPTLITYNVILNVFGKMGTPWNKITSLVEKMKSDGIAPDAYTYNTLITCCKRGSLHQ 296

Query: 137 KAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYI 196
           +A   + E+  +     + TY  LL  Y  S   ++A  V  EM   G  PS V YNS I
Sbjct: 297 EAAQVFEEMKAAGFSYDKVTYNALLDVYGKSHRPKEAMKVLNEMVLNGFSPSIVTYNSLI 356

Query: 197 DGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCK 256
               + G   +A+E+  +M     +P   TYT +++ + +A K   A+ +F EMR+  CK
Sbjct: 357 SAYARDGMLDEAMELKNQMAEKGTKPDVFTYTTLLSGFERAGKVESAMSIFEEMRNAGCK 416

Query: 257 PNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALM----------EAYRL 306
           PNICT+ A +  +   G   E  +IF+++   G+ PD+  +N L+          E   +
Sbjct: 417 PNICTFNAFIKMYGNRGKFTEMMKIFDEINVCGLSPDIVTWNTLLAVFGQNGMDSEVSGV 476

Query: 307 ISRM-HMGCEPDRASYNIMVDAYGRAGLHE 335
              M   G  P+R ++N ++ AY R G  E
Sbjct: 477 FKEMKRAGFVPERETFNTLISAYSRCGSFE 506

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SH26|PP102_ARATH Pentatricopeptide repeat-containing protein At1g63400 OS=Arabidopsis thaliana GN=At1g63400 PE=2 SV=1

 Score =  111 bits (278), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 68/222 (30%), Positives = 112/222 (50%), Gaps = 11/222 (4%)

Query: 125 LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG 184
           LI+A+ ++    +AE  Y E++     P   TY+ L+  +CM   L++A+ +F  M    
Sbjct: 336 LIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKD 395

Query: 185 LPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMAL 244
             P+ V YN+ I+G  K     + VE+F+ M +     +T TYT +I+ + +A     A 
Sbjct: 396 CFPNVVTYNTLINGFCKAKRIDEGVELFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQ 455

Query: 245 KLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALME-- 302
            +F +M S    PNI TY  L++   + G  E+A  +FE LQ + +EP +Y YN ++E  
Sbjct: 456 MVFKQMVSDGVHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGM 515

Query: 303 --------AYRLISRMHM-GCEPDRASYNIMVDAYGRAGLHE 335
                    + L   + + G +PD   YN M+  + R GL E
Sbjct: 516 CKAGKVEDGWDLFCSLSLKGVKPDVIIYNTMISGFCRKGLKE 557

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SXD1|PPR91_ARATH Pentatricopeptide repeat-containing protein At1g62670, mitochondrial OS=Arabidopsis thaliana GN=At1g62670 PE=2 SV=2

 Score =  111 bits (278), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 67/222 (30%), Positives = 112/222 (50%), Gaps = 11/222 (4%)

Query: 125 LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG 184
           LI+A+ ++    +AE  Y E++     P+  TY+ L+  +CM   L++A+ +F  M    
Sbjct: 332 LIDAFVKEGKLVEAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAKQMFEFMVSKH 391

Query: 185 LPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMAL 244
             P  V YN+ I G  K    ++ +E+F+ M +     +T TY ++I    +A    MA 
Sbjct: 392 CFPDVVTYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQ 451

Query: 245 KLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALME-- 302
           ++F EM S    PNI TY  L++   + G  E+A  +FE LQ + +EP +Y YN ++E  
Sbjct: 452 EIFKEMVSDGVPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGM 511

Query: 303 --------AYRLISRMHM-GCEPDRASYNIMVDAYGRAGLHE 335
                    + L   + + G +PD  +YN M+  + R G  E
Sbjct: 512 CKAGKVEDGWDLFCNLSLKGVKPDVVAYNTMISGFCRKGSKE 553

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LW84|PP236_ARATH Pentatricopeptide repeat-containing protein At3g16010 OS=Arabidopsis thaliana GN=At3g16010 PE=2 SV=1

 Score =  111 bits (277), Expect = 9e-24,   Method: Compositional matrix adjust.
 Identities = 68/270 (25%), Positives = 129/270 (47%), Gaps = 21/270 (7%)

Query: 87  DSLPPTHATWDDLINVSVQL----RLNKKWDPIVLMSCVSILL-----IEAYGQKSLHKK 137
           D L P     ++L+N+  ++     L   +  + +  C   ++     I+A  +   H  
Sbjct: 332 DGLTPDVVFLNNLMNILGKVGRVEELTNVFSEMGMWRCTPTVVSYNTVIKALFESKAHVS 391

Query: 138 AEFTYLELLDSRCI-PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYI 196
              ++ + + +  + P+E TY++L+  YC +  +EKA  +  EM + G PP    Y S I
Sbjct: 392 EVSSWFDKMKADSVSPSEFTYSILIDGYCKTNRVEKALLLLEEMDEKGFPPCPAAYCSLI 451

Query: 197 DGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCK 256
           + L K    + A E+F+ +K +    S+  Y +MI  +GK  K   A+ LFNEM++    
Sbjct: 452 NALGKAKRYEAANELFKELKENFGNVSSRVYAVMIKHFGKCGKLSEAVDLFNEMKNQGSG 511

Query: 257 PNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAY-------RLISR 309
           P++  Y AL++   + G+  EA  +  +++  G   D+ ++N ++  +       R I  
Sbjct: 512 PDVYAYNALMSGMVKAGMINEANSLLRKMEENGCRADINSHNIILNGFARTGVPRRAIEM 571

Query: 310 M----HMGCEPDRASYNIMVDAYGRAGLHE 335
                H G +PD  +YN ++  +  AG+ E
Sbjct: 572 FETIKHSGIKPDGVTYNTLLGCFAHAGMFE 601

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	352
255574497	569	pentatricopeptide repeat-containing prot	0.951	0.588	0.752	1e-157
225423724	587	PREDICTED: pentatricopeptide repeat-cont	0.946	0.567	0.740	1e-150
297737955	625	unnamed protein product [Vitis vinifera]	0.946	0.532	0.740	1e-150
356575482	576	PREDICTED: pentatricopeptide repeat-cont	0.946	0.578	0.676	1e-142
449455399	576	PREDICTED: pentatricopeptide repeat-cont	0.923	0.564	0.696	1e-141
388499386	500	unknown [Lotus japonicus]	0.940	0.662	0.666	1e-138
147779268	838	hypothetical protein VITISV_038171 [Viti	0.835	0.350	0.759	1e-137
15226907	591	pentatricopeptide repeat-containing prot	0.940	0.560	0.648	1e-133
334184699	613	pentatricopeptide repeat-containing prot	0.940	0.539	0.648	1e-132
297826989	589	pentatricopeptide repeat-containing prot	0.928	0.555	0.655	1e-127

>gi|255574497|ref|XP_002528160.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223532417|gb|EEF34211.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  559 bits (1440), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 270/359 (75%), Positives = 303/359 (84%), Gaps = 24/359 (6%)

Query: 1   CRASNSTGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFP 60
           C+A +S+G +V+KY RD  F+DK GK +SFNHKKLSRKRCGSLRG+GWKYGSGFVDGIFP
Sbjct: 17  CKAKSSSGGTVEKYKRDALFLDKRGKWQSFNHKKLSRKRCGSLRGQGWKYGSGFVDGIFP 76

Query: 61  VLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLM-- 118
           VLSP AQQIL F+Q+EVD +T+W A D+LP TH TWDDLINV VQLRLNKKWD I+L+  
Sbjct: 77  VLSPIAQQILSFIQKEVDPSTVWAALDTLPATHETWDDLINVVVQLRLNKKWDLILLICQ 136

Query: 119 ---------SCVSI--LLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMS 167
                    S V I  L+I+AYG+KSL+K AE TY EL+++RCIPTEDTYALLLKAYC S
Sbjct: 137 WILYRSSFQSDVMIFNLVIDAYGRKSLYKMAETTYFELIEARCIPTEDTYALLLKAYCTS 196

Query: 168 GLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETY 227
           GLLEKAEA+F EMRKYGLPPSA+VYN+YIDGL+K GNPQ+AVEIFQRMKRDCCQPSTETY
Sbjct: 197 GLLEKAEAIFAEMRKYGLPPSAIVYNAYIDGLMKAGNPQRAVEIFQRMKRDCCQPSTETY 256

Query: 228 TLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG 287
           TL+INL+GKAS+S+MALKLFNEMRS KCKPNICTYTALVNAFAREGLCE+AEEIFEQLQ 
Sbjct: 257 TLLINLHGKASQSYMALKLFNEMRSQKCKPNICTYTALVNAFAREGLCEKAEEIFEQLQE 316

Query: 288 AGIEPDVYAYNALMEAY----------RLISRM-HMGCEPDRASYNIMVDAYGRAGLHE 335
            G EPDVYAYNALMEAY           + S M HMGCEPDRASYNIMVDAYGR GLHE
Sbjct: 317 DGHEPDVYAYNALMEAYSRAGFPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGRGGLHE 375

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225423724|ref|XP_002276864.1| PREDICTED: pentatricopeptide repeat-containing protein At2g35130-like [Vitis vinifera]

 Score =  537 bits (1383), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 266/359 (74%), Positives = 295/359 (82%), Gaps = 26/359 (7%)

Query: 2   RASNSTGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPV 61
           RA N+ G  V+K  RD  FIDK GK RSFN KK SRK+ GSLRG+GWKYGSGFVDGIFPV
Sbjct: 38  RAENTNGGVVEKGKRDSLFIDKRGKFRSFNFKKQSRKKGGSLRGRGWKYGSGFVDGIFPV 97

Query: 62  LSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCV 121
           +SP AQQIL FVQ+E  SN IW + DSL P H TWDD+INV+VQLRLNK+WD IVL+ C 
Sbjct: 98  MSPIAQQILDFVQKEERSNRIWGSLDSLSPNHTTWDDIINVAVQLRLNKQWDAIVLI-CG 156

Query: 122 SIL--------------LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMS 167
            IL              LI+AYGQKSL+KKAE TYLELL++RC+PTEDTYALLLKAYC S
Sbjct: 157 WILYRSSFHPDVICYNLLIDAYGQKSLYKKAESTYLELLEARCVPTEDTYALLLKAYCTS 216

Query: 168 GLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETY 227
           GLLEKAEAVF EMRKYG PPSAVVYN+YIDGL+KGG+ QKAVEIF+RMKRD CQPST TY
Sbjct: 217 GLLEKAEAVFAEMRKYGFPPSAVVYNAYIDGLMKGGDTQKAVEIFERMKRDRCQPSTATY 276

Query: 228 TLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG 287
           T++INLYGKASKS+MALK+F+EMRS KCKPNICT+TALVNAFAREGLCE+AEEIFEQLQ 
Sbjct: 277 TMLINLYGKASKSYMALKVFHEMRSQKCKPNICTFTALVNAFAREGLCEKAEEIFEQLQE 336

Query: 288 AGIEPDVYAYNALMEAY----------RLISRM-HMGCEPDRASYNIMVDAYGRAGLHE 335
           AG+EPDVYAYNALMEAY           + S M HMGCEPDRASYNIMVDAYGRAGLHE
Sbjct: 337 AGLEPDVYAYNALMEAYSRAGFPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGRAGLHE 395

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297737955|emb|CBI27156.3| unnamed protein product [Vitis vinifera]

 Score =  536 bits (1382), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 266/359 (74%), Positives = 295/359 (82%), Gaps = 26/359 (7%)

Query: 2   RASNSTGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPV 61
           RA N+ G  V+K  RD  FIDK GK RSFN KK SRK+ GSLRG+GWKYGSGFVDGIFPV
Sbjct: 76  RAENTNGGVVEKGKRDSLFIDKRGKFRSFNFKKQSRKKGGSLRGRGWKYGSGFVDGIFPV 135

Query: 62  LSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCV 121
           +SP AQQIL FVQ+E  SN IW + DSL P H TWDD+INV+VQLRLNK+WD IVL+ C 
Sbjct: 136 MSPIAQQILDFVQKEERSNRIWGSLDSLSPNHTTWDDIINVAVQLRLNKQWDAIVLI-CG 194

Query: 122 SIL--------------LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMS 167
            IL              LI+AYGQKSL+KKAE TYLELL++RC+PTEDTYALLLKAYC S
Sbjct: 195 WILYRSSFHPDVICYNLLIDAYGQKSLYKKAESTYLELLEARCVPTEDTYALLLKAYCTS 254

Query: 168 GLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETY 227
           GLLEKAEAVF EMRKYG PPSAVVYN+YIDGL+KGG+ QKAVEIF+RMKRD CQPST TY
Sbjct: 255 GLLEKAEAVFAEMRKYGFPPSAVVYNAYIDGLMKGGDTQKAVEIFERMKRDRCQPSTATY 314

Query: 228 TLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG 287
           T++INLYGKASKS+MALK+F+EMRS KCKPNICT+TALVNAFAREGLCE+AEEIFEQLQ 
Sbjct: 315 TMLINLYGKASKSYMALKVFHEMRSQKCKPNICTFTALVNAFAREGLCEKAEEIFEQLQE 374

Query: 288 AGIEPDVYAYNALMEAY----------RLISRM-HMGCEPDRASYNIMVDAYGRAGLHE 335
           AG+EPDVYAYNALMEAY           + S M HMGCEPDRASYNIMVDAYGRAGLHE
Sbjct: 375 AGLEPDVYAYNALMEAYSRAGFPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGRAGLHE 433

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356575482|ref|XP_003555869.1| PREDICTED: pentatricopeptide repeat-containing protein At2g35130-like [Glycine max]

 Score =  509 bits (1312), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 243/359 (67%), Positives = 294/359 (81%), Gaps = 26/359 (7%)

Query: 2   RASNSTGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPV 61
           +A++S  V+++K+ RD  +IDKNG+LR+FNHKK+SRK+CGSLRG+GWKYGSGFVDGIFPV
Sbjct: 25  KANDSNSVALEKFKRDSVYIDKNGRLRNFNHKKVSRKKCGSLRGRGWKYGSGFVDGIFPV 84

Query: 62  LSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCV 121
           LSPTAQQIL +V++ V+S +IW + D LPPT   WDD+  V+VQLR+ K+WD I+ + C 
Sbjct: 85  LSPTAQQILDYVEKGVESESIWGSLDMLPPTLDAWDDIFTVAVQLRMRKQWDSIISI-CR 143

Query: 122 SILL--------------IEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMS 167
            ILL              IEA+GQK L+K+AE TYL+LL++RCIPTEDTYALL+KAYC+S
Sbjct: 144 WILLRSSFKPDVICYNLLIEAFGQKLLYKEAESTYLQLLEARCIPTEDTYALLIKAYCIS 203

Query: 168 GLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETY 227
           GLLEKAEAVF EMR YGLP SAVVYN+YI+GL+KGGN  KA EIF+RMK+D C+P+TETY
Sbjct: 204 GLLEKAEAVFAEMRNYGLPSSAVVYNAYINGLMKGGNSDKAEEIFKRMKKDACKPTTETY 263

Query: 228 TLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG 287
           T++INLYGKA KSFMALKLF+EM SH CKPNICTYTALVNAFAREGLCE+AEE+FEQ+Q 
Sbjct: 264 TMLINLYGKAGKSFMALKLFHEMMSHDCKPNICTYTALVNAFAREGLCEKAEEVFEQMQE 323

Query: 288 AGIEPDVYAYNALMEAY----------RLISRM-HMGCEPDRASYNIMVDAYGRAGLHE 335
           AG+EPDVYAYNALMEAY           + S M HMGCEPDRASYNI+VDAYG+AG  +
Sbjct: 324 AGLEPDVYAYNALMEAYSRAGYPYGAAEIFSLMQHMGCEPDRASYNILVDAYGKAGFQD 382

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449455399|ref|XP_004145440.1| PREDICTED: pentatricopeptide repeat-containing protein At2g35130-like [Cucumis sativus]

 Score =  506 bits (1303), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 243/349 (69%), Positives = 283/349 (81%), Gaps = 24/349 (6%)

Query: 11  VKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPVLSPTAQQIL 70
           V+K  RDG ++DK GK R+FN K+LSRKRCGSLRG+GWKYGSGFVDGIFPVL P AQQI+
Sbjct: 34  VEKSRRDGLYVDKRGKFRTFNRKRLSRKRCGSLRGRGWKYGSGFVDGIFPVLGPLAQQIM 93

Query: 71  RFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMS----------- 119
            FV+ EVD   +WD+ D+LP T++TWDD+I+V+VQLRLNKKW PI+L+            
Sbjct: 94  EFVREEVDYMGLWDSLDTLPATNSTWDDIISVAVQLRLNKKWGPIILICEWIMNKSTFRP 153

Query: 120 --CVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVF 177
              V  LL++AYGQ+SL+K  E TYLELL+S CIPTEDTYALLLKAYC SGLLEKAEAVF
Sbjct: 154 DVIVYNLLMDAYGQRSLYKDVESTYLELLESHCIPTEDTYALLLKAYCKSGLLEKAEAVF 213

Query: 178 REMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKA 237
            EMRKYGL PSA+VYN+YIDGL+KGGN  KAVEIF RMKRD CQP+T+TYT++IN+YGK 
Sbjct: 214 AEMRKYGLSPSAIVYNAYIDGLVKGGNNVKAVEIFHRMKRDGCQPTTDTYTMLINVYGKE 273

Query: 238 SKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAY 297
           SKS MA  +F+EMR+ +CKPNICT+TALVNA AREGLCE+AEEIFEQ+Q AG EPDVYAY
Sbjct: 274 SKSHMAQNIFDEMRTQRCKPNICTFTALVNALAREGLCEKAEEIFEQMQEAGYEPDVYAY 333

Query: 298 NALMEAY----------RLISRM-HMGCEPDRASYNIMVDAYGRAGLHE 335
           NALME+Y           + S M HMGCEPDRASYNIMVDAYGRAGLHE
Sbjct: 334 NALMESYSRAGFPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGRAGLHE 382

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388499386|gb|AFK37759.1| unknown [Lotus japonicus]

 Score =  498 bits (1283), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 238/357 (66%), Positives = 292/357 (81%), Gaps = 26/357 (7%)

Query: 2   RASNSTGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPV 61
           ++++++GV+++K+ RD  +IDK GKLR+FNHKKLSRK+CGSLRG+GWK+GSGFVDGIFPV
Sbjct: 32  KSNDASGVALEKFKRDSVYIDKAGKLRNFNHKKLSRKKCGSLRGRGWKFGSGFVDGIFPV 91

Query: 62  LSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCV 121
           LSPTA++I+ ++Q+ VD+ +IW + D L  +   WDD++ VSVQLR+ K+WD I+ + C 
Sbjct: 92  LSPTAKKIMDYLQKGVDTESIWGSLDMLQASLEIWDDILTVSVQLRMRKQWDSIISI-CR 150

Query: 122 SILL--------------IEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMS 167
            ILL              I+A+GQK L+K+AE TYL+LL++RCIP EDTYALL+KAYC+S
Sbjct: 151 WILLRSSFKQDVICYNLLIDAFGQKFLYKEAESTYLQLLEARCIPNEDTYALLIKAYCLS 210

Query: 168 GLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETY 227
           GLLEKAEAVF EM+ YGLP SAVVYNSYI+GL+KGGNP KA EIF RMKRD C+PSTETY
Sbjct: 211 GLLEKAEAVFVEMKNYGLPSSAVVYNSYINGLMKGGNPNKAEEIFLRMKRDGCKPSTETY 270

Query: 228 TLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG 287
           T++INLYGK  KSFMALK+FNEM SHKCKPNICTYTALVNAFAREGLCE+AEE+FEQ+Q 
Sbjct: 271 TMLINLYGKDGKSFMALKVFNEMLSHKCKPNICTYTALVNAFAREGLCEKAEEVFEQMQE 330

Query: 288 AGIEPDVYAYNALMEAY----------RLISRM-HMGCEPDRASYNIMVDAYGRAGL 333
           AG+EPDVY+YNALMEAY           + S M HMGCEPDRASYNI+VDAYGRAG 
Sbjct: 331 AGLEPDVYSYNALMEAYSRAGFPYGAAEIFSLMQHMGCEPDRASYNILVDAYGRAGF 387

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147779268|emb|CAN70089.1| hypothetical protein VITISV_038171 [Vitis vinifera]

 Score =  495 bits (1274), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 243/320 (75%), Positives = 269/320 (84%), Gaps = 26/320 (8%)

Query: 41  GSLRGKGWKYGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLI 100
           GSLRG+GWKYGSGFVDGIFPV+SP AQQIL FVQ+E  SN IW + DSL P H TWDD+I
Sbjct: 7   GSLRGRGWKYGSGFVDGIFPVMSPIAQQILDFVQKEERSNRIWGSLDSLSPNHTTWDDII 66

Query: 101 NVSVQLRLNKKWDPIVLMSCVSIL--------------LIEAYGQKSLHKKAEFTYLELL 146
           NV+VQLRLNK+WD IVL+ C  IL              LI+AYGQKSL+KKAE TYLELL
Sbjct: 67  NVAVQLRLNKQWDAIVLI-CGWILYRSSFHPDVICYNLLIDAYGQKSLYKKAESTYLELL 125

Query: 147 DSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQ 206
           ++RC+PTEDTYALLLKAYC SGLLEKAEAVF EMRKYG PPSAVVYN+YIDGL+KGG+ Q
Sbjct: 126 EARCVPTEDTYALLLKAYCTSGLLEKAEAVFAEMRKYGFPPSAVVYNAYIDGLMKGGDTQ 185

Query: 207 KAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALV 266
           KAVEIF+RMKRD CQPST TYT++INLYGKASKS+MALK+F+EMRS KCKPNICT+TALV
Sbjct: 186 KAVEIFERMKRDRCQPSTATYTMLINLYGKASKSYMALKVFHEMRSQKCKPNICTFTALV 245

Query: 267 NAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAY----------RLISRM-HMGCE 315
           NAFAREGLCE+AEEIFEQLQ AG+EPDVYAYNALMEAY           + S M HMGCE
Sbjct: 246 NAFAREGLCEKAEEIFEQLQEAGLEPDVYAYNALMEAYSRAGFPYGAAEIFSLMQHMGCE 305

Query: 316 PDRASYNIMVDAYGRAGLHE 335
           PDRASYNIMVDAYGRAGLHE
Sbjct: 306 PDRASYNIMVDAYGRAGLHE 325

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15226907|ref|NP_181058.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75100538|sp|O82178.1|PP186_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At2g35130 gi|3668091|gb|AAC61823.1| hypothetical protein [Arabidopsis thaliana] gi|330253974|gb|AEC09068.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  479 bits (1233), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 234/361 (64%), Positives = 283/361 (78%), Gaps = 30/361 (8%)

Query: 3   ASNSTGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPVL 62
            +N  G +VK Y ++GF ID+ GKL+ FN KKLSRKRCGSLRG+GWKYGSGFVDGIFPVL
Sbjct: 26  VTNLNGATVKSYKQEGFVIDERGKLKRFNRKKLSRKRCGSLRGRGWKYGSGFVDGIFPVL 85

Query: 63  SPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVS 122
           SP AQ+IL F+Q+E D + + D   +LP THA+WDDLINVSVQLRLNKKWD I+L+ C  
Sbjct: 86  SPIAQKILSFIQKETDPDKVADVLGALPSTHASWDDLINVSVQLRLNKKWDSIILV-CEW 144

Query: 123 IL--------------LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSG 168
           IL              LI+AYGQK  +K+AE  Y++LL+SR +PTEDTYALL+KAYCM+G
Sbjct: 145 ILRKSSFQPDVICFNLLIDAYGQKFQYKEAESLYVQLLESRYVPTEDTYALLIKAYCMAG 204

Query: 169 LLEKAEAVFREMRKYGLPPSAV---VYNSYIDGLLK-GGNPQKAVEIFQRMKRDCCQPST 224
           L+E+AE V  EM+ + + P  +   VYN+YI+GL+K  GN ++A+++FQRMKRD C+P+T
Sbjct: 205 LIERAEVVLVEMQNHHVSPKTIGVTVYNAYIEGLMKRKGNTEEAIDVFQRMKRDRCKPTT 264

Query: 225 ETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQ 284
           ETY LMINLYGKASKS+M+ KL+ EMRSH+CKPNICTYTALVNAFAREGLCE+AEEIFEQ
Sbjct: 265 ETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAFAREGLCEKAEEIFEQ 324

Query: 285 LQGAGIEPDVYAYNALMEAY----------RLISRM-HMGCEPDRASYNIMVDAYGRAGL 333
           LQ  G+EPDVY YNALME+Y           + S M HMGCEPDRASYNIMVDAYGRAGL
Sbjct: 325 LQEDGLEPDVYVYNALMESYSRAGYPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGRAGL 384

Query: 334 H 334
           H
Sbjct: 385 H 385

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334184699|ref|NP_001189682.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|330253975|gb|AEC09069.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  478 bits (1230), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 234/361 (64%), Positives = 283/361 (78%), Gaps = 30/361 (8%)

Query: 3   ASNSTGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPVL 62
            +N  G +VK Y ++GF ID+ GKL+ FN KKLSRKRCGSLRG+GWKYGSGFVDGIFPVL
Sbjct: 48  VTNLNGATVKSYKQEGFVIDERGKLKRFNRKKLSRKRCGSLRGRGWKYGSGFVDGIFPVL 107

Query: 63  SPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVS 122
           SP AQ+IL F+Q+E D + + D   +LP THA+WDDLINVSVQLRLNKKWD I+L+ C  
Sbjct: 108 SPIAQKILSFIQKETDPDKVADVLGALPSTHASWDDLINVSVQLRLNKKWDSIILV-CEW 166

Query: 123 IL--------------LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSG 168
           IL              LI+AYGQK  +K+AE  Y++LL+SR +PTEDTYALL+KAYCM+G
Sbjct: 167 ILRKSSFQPDVICFNLLIDAYGQKFQYKEAESLYVQLLESRYVPTEDTYALLIKAYCMAG 226

Query: 169 LLEKAEAVFREMRKYGLPPSAV---VYNSYIDGLLK-GGNPQKAVEIFQRMKRDCCQPST 224
           L+E+AE V  EM+ + + P  +   VYN+YI+GL+K  GN ++A+++FQRMKRD C+P+T
Sbjct: 227 LIERAEVVLVEMQNHHVSPKTIGVTVYNAYIEGLMKRKGNTEEAIDVFQRMKRDRCKPTT 286

Query: 225 ETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQ 284
           ETY LMINLYGKASKS+M+ KL+ EMRSH+CKPNICTYTALVNAFAREGLCE+AEEIFEQ
Sbjct: 287 ETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAFAREGLCEKAEEIFEQ 346

Query: 285 LQGAGIEPDVYAYNALMEAY----------RLISRM-HMGCEPDRASYNIMVDAYGRAGL 333
           LQ  G+EPDVY YNALME+Y           + S M HMGCEPDRASYNIMVDAYGRAGL
Sbjct: 347 LQEDGLEPDVYVYNALMESYSRAGYPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGRAGL 406

Query: 334 H 334
           H
Sbjct: 407 H 407

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297826989|ref|XP_002881377.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297327216|gb|EFH57636.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  459 bits (1181), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 228/348 (65%), Positives = 274/348 (78%), Gaps = 21/348 (6%)

Query: 4   SNSTGVSVKKYNRDGFFIDKNGKLRSFNHKKLSRKRCGSLRGKGWKYGSGFVDGIFPVLS 63
           +N  G + K Y ++GF ID+ GKL+ F+ KKLSRKRCGSLRG+GWKYGSGFVDGIFPVLS
Sbjct: 40  ANLNGGTFKSYKQEGFVIDERGKLKRFSSKKLSRKRCGSLRGRGWKYGSGFVDGIFPVLS 99

Query: 64  PTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSI 123
           P AQ+IL F+Q+E D + + D   +LP THA+WDDLINVSVQLRLNKKWD I+L+ C  I
Sbjct: 100 PIAQKILSFIQKETDPDKVADVLGALPSTHASWDDLINVSVQLRLNKKWDSIILV-CEWI 158

Query: 124 --------------LLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGL 169
                         LLI+AYGQK   K+AE  Y++LL+SRC+PTEDTY LL+KAYCM+GL
Sbjct: 159 LRRSSFQPDVICFNLLIDAYGQKFRFKEAESLYVQLLESRCVPTEDTYTLLIKAYCMAGL 218

Query: 170 LEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK-GGNPQKAVEIFQRMKRDCCQPSTETYT 228
           +EKAEAV  EM+ + + PS  VYN+YI+GL+K  GN ++A+++FQRMKRD C+P+TETY 
Sbjct: 219 IEKAEAVLIEMQNHHVSPSVTVYNAYIEGLMKRKGNTEQAIDVFQRMKRDRCKPTTETYN 278

Query: 229 LMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA 288
           LMINLYGKASKS+M+ KLF EMRSH+CKPNICTYTALVNAFAREGLCE+AEEIFEQLQ  
Sbjct: 279 LMINLYGKASKSYMSWKLFCEMRSHQCKPNICTYTALVNAFAREGLCEKAEEIFEQLQED 338

Query: 289 G-IEPDV-YAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLH 334
           G I+    Y Y A  E + L+   HMGCEPDRASYNIMVDAYGRAGLH
Sbjct: 339 GHIDSRAGYPYGA-AEIFSLMQ--HMGCEPDRASYNIMVDAYGRAGLH 383

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	352
TAIR|locus:2151281	819	AT5G02860 [Arabidopsis thalian	0.590	0.253	0.286	7.7e-24
TAIR|locus:2044430	822	AT2G18940 [Arabidopsis thalian	0.579	0.248	0.302	1.3e-23
TAIR|locus:2024301	606	AT1G09820 "AT1G09820" [Arabido	0.605	0.351	0.283	2.3e-23
TAIR|locus:2093472	642	AT3G16010 [Arabidopsis thalian	0.599	0.328	0.273	4.3e-23
TAIR|locus:2015228	614	AT1G63080 [Arabidopsis thalian	0.678	0.389	0.291	4.9e-23
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.661	0.389	0.292	9.8e-23
TAIR|locus:2175443	952	AT5G04810 [Arabidopsis thalian	0.613	0.226	0.336	1.2e-22
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.678	0.379	0.283	1.4e-22
TAIR|locus:2027166	862	PTAC2 "plastid transcriptional	0.519	0.212	0.323	2.1e-22
TAIR|locus:2098495	880	AT3G07290 "AT3G07290" [Arabido	0.519	0.207	0.319	2.8e-22

TAIR|locus:2151281 AT5G02860 [Arabidopsis thaliana (taxid:3702)]

 Score = 284 (105.0 bits), Expect = 7.7e-24, P = 7.7e-24
 Identities = 63/220 (28%), Positives = 116/220 (52%)

Query:   125 LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGL-LEKAEAVFREMRKY 183
             LI A+     +++A   + ++ +  C PT  TY ++L  +   G    K  ++  +M+  
Sbjct:   214 LISAFANSGRYREAVNVFKKMEEDGCKPTLITYNVILNVFGKMGTPWNKITSLVEKMKSD 273

Query:   184 GLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMA 243
             G+ P A  YN+ I    +G   Q+A ++F+ MK         TY  ++++YGK+ +   A
Sbjct:   274 GIAPDAYTYNTLITCCKRGSLHQEAAQVFEEMKAAGFSYDKVTYNALLDVYGKSHRPKEA 333

Query:   244 LKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEA 303
             +K+ NEM  +   P+I TY +L++A+AR+G+ +EA E+  Q+   G +PDV+ Y  L+  
Sbjct:   334 MKVLNEMVLNGFSPSIVTYNSLISAYARDGMLDEAMELKNQMAEKGTKPDVFTYTTLLSG 393

Query:   304 Y----RLISRMHM-------GCEPDRASYNIMVDAYGRAG 332
             +    ++ S M +       GC+P+  ++N  +  YG  G
Sbjct:   394 FERAGKVESAMSIFEEMRNAGCKPNICTFNAFIKMYGNRG 433

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2044430 AT2G18940 [Arabidopsis thaliana (taxid:3702)]

 Score = 282 (104.3 bits), Expect = 1.3e-23, P = 1.3e-23
 Identities = 63/208 (30%), Positives = 109/208 (52%)

Query:   125 LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG 184
             L++ +G+  ++ +A     E+ ++ C     TY  L+ AY  +G  ++A  V   M K G
Sbjct:   322 LLQVFGKAGVYTEALSVLKEMEENSCPADSVTYNELVAAYVRAGFSKEAAGVIEMMTKKG 381

Query:   185 LPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMAL 244
             + P+A+ Y + ID   K G   +A+++F  MK   C P+T TY  +++L GK S+S   +
Sbjct:   382 VMPNAITYTTVIDAYGKAGKEDEALKLFYSMKEAGCVPNTCTYNAVLSLLGKKSRSNEMI 441

Query:   245 KLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAY 304
             K+  +M+S+ C PN  T+  ++     +G+ +    +F +++  G EPD   +N L+ AY
Sbjct:   442 KMLCDMKSNGCSPNRATWNTMLALCGNKGMDKFVNRVFREMKSCGFEPDRDTFNTLISAY 501

Query:   305 -RLISRMH---MGCEPDRASYNIMVDAY 328
              R  S +    M  E  RA +N  V  Y
Sbjct:   502 GRCGSEVDASKMYGEMTRAGFNACVTTY 529

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2024301 AT1G09820 "AT1G09820" [Arabidopsis thaliana (taxid:3702)]

 Score = 277 (102.6 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 65/229 (28%), Positives = 118/229 (51%)

Query:   118 MSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVF 177
             +SC  +++  A  +++     E+ Y E++  +  P   T+ +++ A C +G + KA  V 
Sbjct:   189 LSCKPLMI--ALLKENRSADVEYVYKEMIRRKIQPNVFTFNVVINALCKTGKMNKARDVM 246

Query:   178 REMRKYGLPPSAVVYNSYIDGLLK-GGNPQ--KAVEIFQRMKRDCCQPSTETYTLMINLY 234
              +M+ YG  P+ V YN+ IDG  K GGN +  KA  + + M  +   P+  T+ ++I+ +
Sbjct:   247 EDMKVYGCSPNVVSYNTLIDGYCKLGGNGKMYKADAVLKEMVENDVSPNLTTFNILIDGF 306

Query:   235 GKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDV 294
              K      ++K+F EM     KPN+ +Y +L+N     G   EA  + +++  AG++P++
Sbjct:   307 WKDDNLPGSMKVFKEMLDQDVKPNVISYNSLINGLCNGGKISEAISMRDKMVSAGVQPNL 366

Query:   295 YAYNALMEAY----RLISRMHM-------GCEPDRASYNIMVDAYGRAG 332
               YNAL+  +     L   + M       G  P    YN+++DAY + G
Sbjct:   367 ITYNALINGFCKNDMLKEALDMFGSVKGQGAVPTTRMYNMLIDAYCKLG 415

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2093472 AT3G16010 [Arabidopsis thaliana (taxid:3702)]

 Score = 275 (101.9 bits), Expect = 4.3e-23, P = 4.3e-23
 Identities = 61/223 (27%), Positives = 112/223 (50%)

Query:   125 LIEAYGQKSLHKKAEFTYLELLDSRCI-PTEDTYALLLKAYCMSGLLEKAEAVFREMRKY 183
             +I+A  +   H     ++ + + +  + P+E TY++L+  YC +  +EKA  +  EM + 
Sbjct:   379 VIKALFESKAHVSEVSSWFDKMKADSVSPSEFTYSILIDGYCKTNRVEKALLLLEEMDEK 438

Query:   184 GLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMA 243
             G PP    Y S I+ L K    + A E+F+ +K +    S+  Y +MI  +GK  K   A
Sbjct:   439 GFPPCPAAYCSLINALGKAKRYEAANELFKELKENFGNVSSRVYAVMIKHFGKCGKLSEA 498

Query:   244 LKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEA 303
             + LFNEM++    P++  Y AL++   + G+  EA  +  +++  G   D+ ++N ++  
Sbjct:   499 VDLFNEMKNQGSGPDVYAYNALMSGMVKAGMINEANSLLRKMEENGCRADINSHNIILNG 558

Query:   304 Y-------RLISRM----HMGCEPDRASYNIMVDAYGRAGLHE 335
             +       R I       H G +PD  +YN ++  +  AG+ E
Sbjct:   559 FARTGVPRRAIEMFETIKHSGIKPDGVTYNTLLGCFAHAGMFE 601

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015228 AT1G63080 [Arabidopsis thaliana (taxid:3702)]

 Score = 274 (101.5 bits), Expect = 4.9e-23, P = 4.9e-23
 Identities = 74/254 (29%), Positives = 123/254 (48%)

Query:    93 HATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIP 152
             +  W D   +   + L +K +P V+       LI+A+ ++    +AE  + E++     P
Sbjct:   288 YGRWSDASRLLSDM-LERKINPNVV---TFNSLIDAFAKEGKLIEAEKLFDEMIQRSIDP 343

Query:   153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIF 212
                TY  L+  +CM   L++A+ +F  M      P  V YN+ I+G  K       +E+F
Sbjct:   344 NIVTYNSLINGFCMHDRLDEAQQIFTLMVSKDCLPDVVTYNTLINGFCKAKKVVDGMELF 403

Query:   213 QRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFARE 272
             + M R     +T TYT +I+ + +AS    A  +F +M S    PNI TY  L++   + 
Sbjct:   404 RDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDGVHPNIMTYNTLLDGLCKN 463

Query:   273 GLCEEAEEIFEQLQGAGIEPDVYAYNALMEA----------YRLISRMHM-GCEPDRASY 321
             G  E+A  +FE LQ + +EPD+Y YN + E           + L   + + G +PD  +Y
Sbjct:   464 GKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKVEDGWDLFCSLSLKGVKPDVIAY 523

Query:   322 NIMVDAYGRAGLHE 335
             N M+  + + GL E
Sbjct:   524 NTMISGFCKKGLKE 537

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 271 (100.5 bits), Expect = 9.8e-23, P = 9.8e-23
 Identities = 73/250 (29%), Positives = 119/250 (47%)

Query:    96 WDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSR-CIPTE 154
             W D   +   + L K + P V+   +   LI    +K L  +A    LE +    C P  
Sbjct:   325 WMDAEKLLADM-LRKGFSPSVVTFNI---LINFLCRKGLLGRA-IDILEKMPQHGCQPNS 379

Query:   155 DTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQR 214
              +Y  LL  +C    +++A      M   G  P  V YN+ +  L K G  + AVEI  +
Sbjct:   380 LSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQ 439

Query:   215 MKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGL 274
             +    C P   TY  +I+   KA K+  A+KL +EMR+   KP+  TY++LV   +REG 
Sbjct:   440 LSSKGCSPVLITYNTVIDGLAKAGKTGKAIKLLDEMRAKDLKPDTITYSSLVGGLSREGK 499

Query:   275 CEEAEEIFEQLQGAGIEPDVYAYNALM-------EAYR----LISRMHMGCEPDRASYNI 323
              +EA + F + +  GI P+   +N++M       +  R    L+  ++ GC+P+  SY I
Sbjct:   500 VDEAIKFFHEFERMGIRPNAVTFNSIMLGLCKSRQTDRAIDFLVFMINRGCKPNETSYTI 559

Query:   324 MVDAYGRAGL 333
             +++     G+
Sbjct:   560 LIEGLAYEGM 569

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2175443 AT5G04810 [Arabidopsis thaliana (taxid:3702)]

 Score = 274 (101.5 bits), Expect = 1.2e-22, P = 1.2e-22
 Identities = 77/229 (33%), Positives = 120/229 (52%)

Query:    91 PTHATWDDLINVSVQLRLNKKWDPIV---LMSCVSI------LLIEAYGQKSLHKKAEFT 141
             PT  T++ LIN  V+ R  +K   I+    ++ VS        +++ Y       KA F 
Sbjct:   622 PTVHTFNGLINGLVEKRQMEKAVEILDEMTLAGVSANEHTYTKIMQGYASVGDTGKA-FE 680

Query:   142 YLELLDSRCIPTED-TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL 200
             Y   L +  +  +  TY  LLKA C SG ++ A AV +EM    +P ++ VYN  IDG  
Sbjct:   681 YFTRLQNEGLDVDIFTYEALLKACCKSGRMQSALAVTKEMSARNIPRNSFVYNILIDGWA 740

Query:   201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNIC 260
             + G+  +A ++ Q+MK++  +P   TYT  I+   KA     A +   EM +   KPNI 
Sbjct:   741 RRGDVWEAADLIQQMKKEGVKPDIHTYTSFISACSKAGDMNRATQTIEEMEALGVKPNIK 800

Query:   261 TYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISR 309
             TYT L+  +AR  L E+A   +E+++  GI+PD   Y+ L+ +  L+SR
Sbjct:   801 TYTTLIKGWARASLPEKALSCYEEMKAMGIKPDKAVYHCLLTS--LLSR 847

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

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

 Score = 270 (100.1 bits), Expect = 1.4e-22, P = 1.4e-22
 Identities = 72/254 (28%), Positives = 123/254 (48%)

Query:    93 HATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIP 152
             +  W D   +   + + +K +P V        LI+A+ ++    +AE  Y E++     P
Sbjct:   304 YGRWSDASRLLSDM-IERKINPDVFTFSA---LIDAFVKEGKLVEAEKLYDEMVKRSIDP 359

Query:   153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIF 212
             +  TY+ L+  +CM   L++A+ +F  M      P  V YN+ I G  K    ++ +E+F
Sbjct:   360 SIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVF 419

Query:   213 QRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFARE 272
             + M +     +T TY ++I    +A    MA ++F EM S    PNI TY  L++   + 
Sbjct:   420 REMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKN 479

Query:   273 GLCEEAEEIFEQLQGAGIEPDVYAYNALMEA----------YRLISRMHM-GCEPDRASY 321
             G  E+A  +FE LQ + +EP +Y YN ++E           + L   + + G +PD  +Y
Sbjct:   480 GKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLSLKGVKPDVVAY 539

Query:   322 NIMVDAYGRAGLHE 335
             N M+  + R G  E
Sbjct:   540 NTMISGFCRKGSKE 553

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

GO:0003723 "RNA binding" evidence=IDA

TAIR|locus:2027166 PTAC2 "plastid transcriptionally active 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 271 (100.5 bits), Expect = 2.1e-22, P = 2.1e-22
 Identities = 63/195 (32%), Positives = 99/195 (50%)

Query:   150 CIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAV 209
             C P E  Y +++      GLL+K   VF EM   G+  S   Y + I+   + G  + ++
Sbjct:   137 CKPNEHIYTIMISLLGREGLLDKCLEVFDEMPSQGVSRSVFSYTALINAYGRNGRYETSL 196

Query:   210 EIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALK-LFNEMRSHKCKPNICTYTALVNA 268
             E+  RMK +   PS  TY  +IN   +    +  L  LF EMR    +P+I TY  L++A
Sbjct:   197 ELLDRMKNEKISPSILTYNTVINACARGGLDWEGLLGLFAEMRHEGIQPDIVTYNTLLSA 256

Query:   269 FAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCE-----------PD 317
              A  GL +EAE +F  +   GI PD+  Y+ L+E +  + R+   C+           PD
Sbjct:   257 CAIRGLGDEAEMVFRTMNDGGIVPDLTTYSHLVETFGKLRRLEKVCDLLGEMASGGSLPD 316

Query:   318 RASYNIMVDAYGRAG 332
               SYN++++AY ++G
Sbjct:   317 ITSYNVLLEAYAKSG 331

GO:0009507 "chloroplast" evidence=IDA

GO:0009295 "nucleoid" evidence=IDA

GO:0009508 "plastid chromosome" evidence=IDA

GO:0042793 "transcription from plastid promoter" evidence=RCA;IMP

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA;IMP

GO:0006364 "rRNA processing" evidence=RCA

GO:0006399 "tRNA metabolic process" evidence=RCA

GO:0009658 "chloroplast organization" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0030154 "cell differentiation" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

TAIR|locus:2098495 AT3G07290 "AT3G07290" [Arabidopsis thaliana (taxid:3702)]

 Score = 270 (100.1 bits), Expect = 2.8e-22, P = 2.8e-22
 Identities = 62/194 (31%), Positives = 102/194 (52%)

Query:   150 CIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAV 209
             C P+  TY +L+KA C  GL++KA  +F EM   G  P+   Y   IDGL + G  ++A 
Sbjct:   297 CQPSTRTYTVLIKALCDRGLIDKAFNLFDEMIPRGCKPNVHTYTVLIDGLCRDGKIEEAN 356

Query:   210 EIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAF 269
              + ++M +D   PS  TY  +IN Y K  +   A +L   M    CKPN+ T+  L+   
Sbjct:   357 GVCRKMVKDRIFPSVITYNALINGYCKDGRVVPAFELLTVMEKRACKPNVRTFNELMEGL 416

Query:   270 AREGLCEEAEEIFEQLQGAGIEPDVYAYNALME----------AYRLISRMH-MGCEPDR 318
              R G   +A  + +++   G+ PD+ +YN L++          AY+L+S M+    EPD 
Sbjct:   417 CRVGKPYKAVHLLKRMLDNGLSPDIVSYNVLIDGLCREGHMNTAYKLLSSMNCFDIEPDC 476

Query:   319 ASYNIMVDAYGRAG 332
              ++  +++A+ + G
Sbjct:   477 LTFTAIINAFCKQG 490

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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	352
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	8e-15
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-12
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-10
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-10
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-08
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-06
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	3e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-06
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-06
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	9e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
pfam01535	31	pfam01535, PPR, PPR repeat	3e-05
pfam01535	31	pfam01535, PPR, PPR repeat	4e-05
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	4e-05
pfam01535	31	pfam01535, PPR, PPR repeat	7e-05
pfam01535	31	pfam01535, PPR, PPR repeat	8e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.004
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	0.004

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

 Score = 75.3 bits (185), Expect = 8e-15
 Identities = 36/143 (25%), Positives = 73/143 (51%)

Query: 152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEI 211
           P E  ++ L+     +G L+KA  + ++ RK G+    V Y+S +       N +KA+E+
Sbjct: 647 PDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALEL 706

Query: 212 FQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR 271
           ++ +K    +P+  T   +I    + ++   AL++ +EM+     PN  TY+ L+ A  R
Sbjct: 707 YEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASER 766

Query: 272 EGLCEEAEEIFEQLQGAGIEPDV 294
           +   +   ++  Q +  GI+P++
Sbjct: 767 KDDADVGLDLLSQAKEDGIKPNL 789

Length = 1060

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

 Score = 73.7 bits (181), Expect = 3e-14
 Identities = 60/215 (27%), Positives = 89/215 (41%), Gaps = 11/215 (5%)

Query: 125 LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG 184
           +I  Y +  L  KA  TY  +      P E T A +L A    G L+    +     + G
Sbjct: 360 MISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKG 419

Query: 185 LPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMAL 244
           L    VV N+ I+   K     KA+E+F  +          ++T +I      ++ F AL
Sbjct: 420 LISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEAL 475

Query: 245 KLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAY 304
             F +M     KPN  T  A ++A AR G     +EI   +   GI  D +  NAL++ Y
Sbjct: 476 IFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLY 534

Query: 305 RLISRMHMG------CEPDRASYNIMVDAYGRAGL 333
               RM+         E D  S+NI++  Y   G 
Sbjct: 535 VRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGK 569

Length = 857

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

 Score = 73.0 bits (179), Expect = 6e-14
 Identities = 41/187 (21%), Positives = 92/187 (49%), Gaps = 11/187 (5%)

Query: 152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEI 211
           P   T   L+KA   +G +++A+ V++ + +Y +  +  VY   ++   + G+   A+ I
Sbjct: 577 PDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSI 636

Query: 212 FQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR 271
           +  MK+   +P    ++ ++++ G A     A ++  + R    K    +Y++L+ A + 
Sbjct: 637 YDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSN 696

Query: 272 EGLCEEAEEIFEQLQGAGIEPDVYAYNALM----------EAYRLISRM-HMGCEPDRAS 320
               ++A E++E ++   + P V   NAL+          +A  ++S M  +G  P+  +
Sbjct: 697 AKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTIT 756

Query: 321 YNIMVDA 327
           Y+I++ A
Sbjct: 757 YSILLVA 763

Length = 1060

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

 Score = 63.6 bits (156), Expect = 2e-13
 Identities = 21/50 (42%), Positives = 29/50 (58%)

Query: 222 PSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR 271
           P   TY  +I+ Y K  K   ALKLFNEM+    KPN+ TY+ L++   +
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 59.3 bits (145), Expect = 7e-12
 Identities = 16/48 (33%), Positives = 33/48 (68%)

Query: 257 PNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAY 304
           P++ TY  L++ + ++G  EEA ++F +++  GI+P+VY Y+ L++  
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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 = 62.6 bits (152), Expect = 1e-10
 Identities = 38/154 (24%), Positives = 70/154 (45%), Gaps = 2/154 (1%)

Query: 152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEI 211
           PT  T+ +L+     S  ++ A  V R +++ GL     +Y + I    K G      E+
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 212 FQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR 271
           F  M     + +  T+  +I+   +A +   A   +  MRS   KP+   + AL++A  +
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQ 554

Query: 272 EGLCEEAEEIFEQLQGAG--IEPDVYAYNALMEA 303
            G  + A ++  +++     I+PD     ALM+A
Sbjct: 555 SGAVDRAFDVLAEMKAETHPIDPDHITVGALMKA 588

Length = 1060

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

 Score = 62.2 bits (151), Expect = 1e-10
 Identities = 47/184 (25%), Positives = 86/184 (46%), Gaps = 18/184 (9%)

Query: 160 LLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDC 219
           L+  Y   G +E A  VF  M +  L    + +N+ I G    G   KAVE+F+RM  + 
Sbjct: 366 LVDLYSKWGRMEDARNVFDRMPRKNL----ISWNALIAGYGNHGRGTKAVEMFERMIAEG 421

Query: 220 CQPSTETYTLMINLYGKASKSFMALKLFNEM-RSHKCKPNICTYTALVNAFAREGLCEEA 278
             P+  T+  +++    +  S    ++F  M  +H+ KP    Y  ++    REGL +EA
Sbjct: 422 VAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA 481

Query: 279 EEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHM---------GCEPDR-ASYNIMVDAY 328
              +  ++ A  +P V  + AL+ A R+   + +         G  P++  +Y ++++ Y
Sbjct: 482 ---YAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLY 538

Query: 329 GRAG 332
             +G
Sbjct: 539 NSSG 542

Length = 697

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

 Score = 54.7 bits (133), Expect = 3e-10
 Identities = 18/50 (36%), Positives = 31/50 (62%)

Query: 187 PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGK 236
           P  V YN+ IDG  K G  ++A+++F  MK+   +P+  TY+++I+   K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 53.6 bits (130), Expect = 7e-10
 Identities = 20/46 (43%), Positives = 28/46 (60%)

Query: 156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK 201
           TY  L+  YC  G +E+A  +F EM+K G+ P+   Y+  IDGL 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

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

 Score = 58.3 bits (141), Expect = 2e-09
 Identities = 48/191 (25%), Positives = 87/191 (45%), Gaps = 18/191 (9%)

Query: 133 SLHKKAEFT---YLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSA 189
           +LH  +E     Y E+ DS     + T++++++ +    LLE A+     + + G P   
Sbjct: 301 ALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDI 360

Query: 190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNE 249
           V   + +D   K G  + A  +F RM R     +  ++  +I  YG   +   A+++F  
Sbjct: 361 VANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFER 416

Query: 250 MRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQL-QGAGIEPDVYAYNALM------- 301
           M +    PN  T+ A+++A    GL E+  EIF+ + +   I+P    Y  ++       
Sbjct: 417 MIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREG 476

Query: 302 ---EAYRLISR 309
              EAY +I R
Sbjct: 477 LLDEAYAMIRR 487

Length = 697

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

 Score = 57.2 bits (138), Expect = 7e-09
 Identities = 48/190 (25%), Positives = 84/190 (44%), Gaps = 13/190 (6%)

Query: 157 YALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMK 216
           Y  L+     SG ++    VF EM   G+  +   + + IDG  + G   KA   +  M+
Sbjct: 475 YTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMR 534

Query: 217 RDCCQPSTETYTLMINLYGKASKSFMALKLFNEMR--SHKCKPNICTYTALVNAFAREGL 274
               +P    +  +I+  G++     A  +  EM+  +H   P+  T  AL+ A A  G 
Sbjct: 535 SKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ 594

Query: 275 CEEAEEIFEQLQGAGIE--PDVY--AYNALME------AYRLISRM-HMGCEPDRASYNI 323
            + A+E+++ +    I+  P+VY  A N+  +      A  +   M   G +PD   ++ 
Sbjct: 595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSA 654

Query: 324 MVDAYGRAGL 333
           +VD  G AG 
Sbjct: 655 LVDVAGHAGD 664

Length = 1060

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

 Score = 55.3 bits (133), Expect = 3e-08
 Identities = 29/119 (24%), Positives = 56/119 (47%), Gaps = 6/119 (5%)

Query: 157 YALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMK 216
           Y+ L+ A   +   +KA  ++ +++   L P+    N+ I  L +G    KA+E+   MK
Sbjct: 687 YSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMK 746

Query: 217 RDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLC 275
           R    P+T TY++++    +   + + L L ++ +    KPN+     +       GLC
Sbjct: 747 RLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT------GLC 799

Length = 1060

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

 Score = 52.6 bits (126), Expect = 2e-07
 Identities = 41/199 (20%), Positives = 85/199 (42%), Gaps = 27/199 (13%)

Query: 152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEI 211
           P +     +L  +   G+L  A  +F EM +  L      + + I GL+  GN ++A  +
Sbjct: 156 PDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL----ASWGTIIGGLVDAGNYREAFAL 211

Query: 212 FQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYT----ALVN 267
           F+ M  D       T+ +M+    +AS    + +   ++     K  +   T    AL++
Sbjct: 212 FREMWEDGSDAEPRTFVVML----RASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALID 267

Query: 268 AFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRL-------ISRMHMGCEP---- 316
            +++ G  E+A  +F+ +     E    A+N+++  Y L       +   +   +     
Sbjct: 268 MYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSI 323

Query: 317 DRASYNIMVDAYGRAGLHE 335
           D+ +++IM+  + R  L E
Sbjct: 324 DQFTFSIMIRIFSRLALLE 342

Length = 697

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

 Score = 43.5 bits (104), Expect = 2e-06
 Identities = 10/30 (33%), Positives = 18/30 (60%)

Query: 255 CKPNICTYTALVNAFAREGLCEEAEEIFEQ 284
            KP++ TY  L++   R G  +EA E+ ++
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 43.3 bits (103), Expect = 3e-06
 Identities = 14/34 (41%), Positives = 18/34 (52%)

Query: 154 EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPP 187
            +TY  LL A   +G  + A AV  EM+  GL P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 43.2 bits (103), Expect = 3e-06
 Identities = 12/34 (35%), Positives = 21/34 (61%)

Query: 156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSA 189
           TY  L+   C +G +E+A  +F+EM++ G+ P  
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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 = 47.5 bits (113), Expect = 7e-06
 Identities = 42/187 (22%), Positives = 79/187 (42%), Gaps = 18/187 (9%)

Query: 152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEI 211
           P   T    L A    G L   + +   + + G+     + N+ +D  ++ G    A   
Sbjct: 487 PNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQ 546

Query: 212 FQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR 271
           F   ++D       ++ +++  Y    K  MA++LFN M      P+  T+ +L+ A +R
Sbjct: 547 FNSHEKD-----VVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSR 601

Query: 272 EGLCEEAEEIFEQLQGA-GIEPDVYAY----------NALMEAYRLISRMHMGCEPDRAS 320
            G+  +  E F  ++    I P++  Y            L EAY  I++M +   PD A 
Sbjct: 602 SGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPI--TPDPAV 659

Query: 321 YNIMVDA 327
           +  +++A
Sbjct: 660 WGALLNA 666

Length = 857

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

 Score = 47.5 bits (113), Expect = 7e-06
 Identities = 44/184 (23%), Positives = 72/184 (39%), Gaps = 19/184 (10%)

Query: 160 LLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDC 219
           LL  Y   G +  A   F    K       V +N  + G +  G    AVE+F RM    
Sbjct: 530 LLDLYVRCGRMNYAWNQFNSHEK-----DVVSWNILLTGYVAHGKGSMAVELFNRMVESG 584

Query: 220 CQPSTETYTLMINLYGKASKSFMALKLFNEMR-SHKCKPNICTYTALVNAFAREGLCEEA 278
             P   T+  ++    ++      L+ F+ M   +   PN+  Y  +V+   R G   EA
Sbjct: 585 VNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEA 644

Query: 279 EEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMG---------CEPDRASYNIMV-DAY 328
                ++    I PD   + AL+ A R+   + +G          +P+   Y I++ + Y
Sbjct: 645 YNFINKMP---ITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLY 701

Query: 329 GRAG 332
             AG
Sbjct: 702 ADAG 705

Length = 857

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

 Score = 41.7 bits (99), Expect = 9e-06
 Identities = 15/35 (42%), Positives = 23/35 (65%)

Query: 260 CTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDV 294
            TY  L++   + G  EEA E+F++++  GIEPDV
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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 = 41.3 bits (98), Expect = 1e-05
 Identities = 12/34 (35%), Positives = 20/34 (58%)

Query: 226 TYTLMINLYGKASKSFMALKLFNEMRSHKCKPNI 259
           TY  +I+   KA +   AL+LF EM+    +P++
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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 = 41.3 bits (98), Expect = 1e-05
 Identities = 15/35 (42%), Positives = 22/35 (62%)

Query: 190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPST 224
           V YN+ IDGL K G  ++A+E+F+ MK    +P  
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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|205109 pfam12854, PPR_1, PPR repeat

 Score = 40.8 bits (97), Expect = 2e-05
 Identities = 9/32 (28%), Positives = 15/32 (46%)

Query: 150 CIPTEDTYALLLKAYCMSGLLEKAEAVFREMR 181
             P   TY  L+   C +G +++A  +  EM 
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 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|144943 pfam01535, PPR, PPR repeat

 Score = 40.1 bits (95), Expect = 3e-05
 Identities = 13/30 (43%), Positives = 21/30 (70%)

Query: 156 TYALLLKAYCMSGLLEKAEAVFREMRKYGL 185
           TY  L+  YC +G LE+A  +F+EM++ G+
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|144943 pfam01535, PPR, PPR repeat

 Score = 39.7 bits (94), Expect = 4e-05
 Identities = 10/30 (33%), Positives = 21/30 (70%)

Query: 261 TYTALVNAFAREGLCEEAEEIFEQLQGAGI 290
           TY +L++ + + G  EEA E+F++++  G+
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|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only]

 Score = 44.5 bits (103), Expect = 4e-05
 Identities = 33/183 (18%), Positives = 60/183 (32%), Gaps = 5/183 (2%)

Query: 125 LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG 184
           L         +++A     + L     P      L L A    G  E+A  ++ +  +  
Sbjct: 101 LGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELD 160

Query: 185 LPPS--AVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFM 242
              +  A    +    L   G  ++A+E+ ++  +       E    +  LY K  K   
Sbjct: 161 PELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEE 220

Query: 243 ALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALME 302
           AL+ + +        N      L       G  EEA E  E+     ++PD+Y     + 
Sbjct: 221 ALEYYEKAL-ELDPDNAEALYNLALLLLELGRYEEALEALEKAL--ELDPDLYNLGLALL 277

Query: 303 AYR 305
              
Sbjct: 278 LLL 280

Length = 291

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

 Score = 39.0 bits (92), Expect = 7e-05
 Identities = 13/31 (41%), Positives = 18/31 (58%)

Query: 190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC 220
           V YNS I G  K G  ++A+E+F+ MK    
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 39.0 bits (92), Expect = 8e-05
 Identities = 13/30 (43%), Positives = 17/30 (56%)

Query: 226 TYTLMINLYGKASKSFMALKLFNEMRSHKC 255
           TY  +I+ Y KA K   AL+LF EM+    
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 = 37.7 bits (89), Expect = 2e-04
 Identities = 15/33 (45%), Positives = 20/33 (60%)

Query: 184 GLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMK 216
           GL P  V YN+ IDGL + G   +AVE+   M+
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 41.4 bits (97), Expect = 7e-04
 Identities = 45/224 (20%), Positives = 87/224 (38%), Gaps = 30/224 (13%)

Query: 125 LIEAYGQKSLHKKAEFTYLELLDSRCIPTED--TYALLLKAYCMSGLLEKAEAVFREMRK 182
           LIE Y +     KA    LE+     IP +D  ++  ++    ++    +A   FR+M  
Sbjct: 430 LIEMYSKCKCIDKA----LEVF--HNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQM-L 482

Query: 183 YGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETY--TLMINLYGKASKS 240
             L P++V   + +    + G      EI   + R       + +    +++LY +  + 
Sbjct: 483 LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLR--TGIGFDGFLPNALLDLYVRCGRM 540

Query: 241 FMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNAL 300
             A   FN       + ++ ++  L+  +   G    A E+F ++  +G+ PD   + +L
Sbjct: 541 NYAWNQFN-----SHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISL 595

Query: 301 M----------EAYRLISRM--HMGCEPDRASYNIMVDAYGRAG 332
           +          +       M       P+   Y  +VD  GRAG
Sbjct: 596 LCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAG 639

Length = 857

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

 Score = 38.7 bits (90), Expect = 0.004
 Identities = 23/87 (26%), Positives = 40/87 (45%)

Query: 136 KKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSY 195
           KKA   Y ++   +  PT  T   L+ A C    L KA  V  EM++ GL P+ + Y+  
Sbjct: 701 KKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSIL 760

Query: 196 IDGLLKGGNPQKAVEIFQRMKRDCCQP 222
           +    +  +    +++  + K D  +P
Sbjct: 761 LVASERKDDADVGLDLLSQAKEDGIKP 787

Length = 1060

>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only]

 Score = 38.3 bits (87), Expect = 0.004
 Identities = 34/190 (17%), Positives = 59/190 (31%), Gaps = 4/190 (2%)

Query: 124 LLIEAYGQKSLHKKAEFTYLELLDS-RCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRK 182
             +          +A     E L+            LL  A    G LE+A  +  +  +
Sbjct: 28  AGLALLELLGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALE 87

Query: 183 YGLPP-SAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSF 241
             L P  A    +    L   G  ++A+E+ ++       P      L +    +     
Sbjct: 88  LELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYE 147

Query: 242 MALKLFNEM--RSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNA 299
            AL+L+ +      +         AL       G  EEA E+ E+      + D  A   
Sbjct: 148 EALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLN 207

Query: 300 LMEAYRLISR 309
           L   Y  + +
Sbjct: 208 LGLLYLKLGK 217

Length = 291

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	352
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
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.8
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.8
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.76
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.75
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.63
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.6
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.53
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.52
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.47
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.47
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.45
PF13041	50	PPR_2: PPR repeat family	99.44
PF13041	50	PPR_2: PPR repeat family	99.43
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.34
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.34
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.32
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.31
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.31
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.31
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.3
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.29
KOG1126	638	consensus DNA-binding cell division cycle control	99.28
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.24
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.24
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.2
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.18
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.18
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.18
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.18
PRK14574	822	hmsH outer membrane protein; Provisional	99.14
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.14
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.11
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.11
PRK12370	553	invasion protein regulator; Provisional	99.08
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.07
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.07
PRK14574	822	hmsH outer membrane protein; Provisional	99.05
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.03
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.02
KOG1129	478	consensus TPR repeat-containing protein [General f	99.0
PRK12370	553	invasion protein regulator; Provisional	98.96
PRK11189	296	lipoprotein NlpI; Provisional	98.95
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.92
KOG1129	478	consensus TPR repeat-containing protein [General f	98.85
KOG2003	840	consensus TPR repeat-containing protein [General f	98.84
PF12854	34	PPR_1: PPR repeat	98.84
PF12854	34	PPR_1: PPR repeat	98.84
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.84
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.79
KOG2076	895	consensus RNA polymerase III transcription factor	98.79
KOG2003	840	consensus TPR repeat-containing protein [General f	98.79
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.78
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.77
KOG1126	638	consensus DNA-binding cell division cycle control	98.76
PRK11189	296	lipoprotein NlpI; Provisional	98.73
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.7
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.66
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.66
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.61
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.6
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.58
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.57
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.55
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.53
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.53
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.52
KOG2076	895	consensus RNA polymerase III transcription factor	98.52
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.49
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.45
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.44
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.41
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.4
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.39
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.35
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.34
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.34
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.3
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.29
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.28
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.28
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.27
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.27
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.26
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.26
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.25
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.22
PRK15359	144	type III secretion system chaperone protein SscB;	98.22
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.18
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.18
PRK15359	144	type III secretion system chaperone protein SscB;	98.17
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.14
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.14
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.12
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.1
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.09
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.08
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.08
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.06
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.05
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.05
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.03
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.03
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.03
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.02
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.02
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.0
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.97
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.96
PLN02789	320	farnesyltranstransferase	97.94
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.91
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.9
PRK04841	903	transcriptional regulator MalT; Provisional	97.9
KOG1125	579	consensus TPR repeat-containing protein [General f	97.9
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.89
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.89
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.87
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.85
PRK04841	903	transcriptional regulator MalT; Provisional	97.84
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.82
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.82
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.78
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.76
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.75
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.75
KOG1125	579	consensus TPR repeat-containing protein [General f	97.74
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.72
KOG4340	459	consensus Uncharacterized conserved protein [Funct	97.72
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.72
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.72
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.7
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.68
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	97.67
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.67
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.65
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.63
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.54
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.53
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.52
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.5
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.48
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.47
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.47
PLN02789	320	farnesyltranstransferase	97.45
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.44
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.42
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.4
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.4
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.4
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.39
PF12688	120	TPR_5: Tetratrico peptide repeat	97.39
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.38
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.36
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.35
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.33
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.29
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.28
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.28
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.27
PF12688	120	TPR_5: Tetratrico peptide repeat	97.25
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.23
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.21
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.19
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.18
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.16
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.14
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.13
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.1
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.09
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.94
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.94
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.88
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.8
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	96.79
PRK10803	263	tol-pal system protein YbgF; Provisional	96.78
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.77
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.69
PRK10803	263	tol-pal system protein YbgF; Provisional	96.65
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.55
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.51
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.5
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.46
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	96.44
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	96.39
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	96.38
KOG3941	406	consensus Intermediate in Toll signal transduction	96.36
KOG3941	406	consensus Intermediate in Toll signal transduction	96.34
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.32
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.31
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.25
KOG0553	304	consensus TPR repeat-containing protein [General f	96.23
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.17
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	96.17
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.12
PF13371	73	TPR_9: Tetratricopeptide repeat	96.1
KOG0553	304	consensus TPR repeat-containing protein [General f	96.09
PF13371	73	TPR_9: Tetratricopeptide repeat	96.07
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.0
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.9
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	95.77
COG4700	251	Uncharacterized protein conserved in bacteria cont	95.74
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	95.69
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.62
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	95.55
KOG1585	308	consensus Protein required for fusion of vesicles	95.49
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.45
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.43
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	95.39
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.34
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.28
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.21
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.16
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.1
PRK15331	165	chaperone protein SicA; Provisional	95.08
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.08
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.02
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.01
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.92
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.91
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.76
KOG2041	1189	consensus WD40 repeat protein [General function pr	94.74
PRK15331	165	chaperone protein SicA; Provisional	94.62
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.54
KOG2796	366	consensus Uncharacterized conserved protein [Funct	94.37
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.36
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	94.17
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.12
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.01
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.89
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.8
COG3898	531	Uncharacterized membrane-bound protein [Function u	93.6
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.59
PF13512	142	TPR_18: Tetratricopeptide repeat	93.46
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.36
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	93.26
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	93.14
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.13
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.12
KOG2041	1189	consensus WD40 repeat protein [General function pr	93.05
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	92.92
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	92.78
KOG4555	175	consensus TPR repeat-containing protein [Function	92.69
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.62
PF13428	44	TPR_14: Tetratricopeptide repeat	92.22
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	92.17
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	92.16
KOG4555	175	consensus TPR repeat-containing protein [Function	91.87
COG3118	304	Thioredoxin domain-containing protein [Posttransla	91.76
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	91.71
KOG4570	418	consensus Uncharacterized conserved protein [Funct	91.7
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	91.57
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.52
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	91.38
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	91.24
PF13428	44	TPR_14: Tetratricopeptide repeat	91.21
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.12
PF13512	142	TPR_18: Tetratricopeptide repeat	90.23
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	89.65
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.61
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	89.53
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	89.28
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.26
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	88.85
COG0457	291	NrfG FOG: TPR repeat [General function prediction	88.52
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	88.42
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.37
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	88.32
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	88.19
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	88.11
PF13762	145	MNE1: Mitochondrial splicing apparatus component	87.96
COG4455	273	ImpE Protein of avirulence locus involved in tempe	87.86
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	87.37
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	87.06
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	86.93
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	86.74
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	86.58
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	86.2
PF13929	292	mRNA_stabil: mRNA stabilisation	86.13
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	86.02
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	85.6
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	85.3
COG3118	304	Thioredoxin domain-containing protein [Posttransla	84.92
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	83.93
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	83.83
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	83.54
COG0457	291	NrfG FOG: TPR repeat [General function prediction	83.38
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	83.3
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	82.97
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	82.91
PF13762	145	MNE1: Mitochondrial splicing apparatus component	82.35
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	82.26
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	81.51
PF13431	34	TPR_17: Tetratricopeptide repeat	81.36
PF04910	360	Tcf25: Transcriptional repressor TCF25; InterPro:	81.23
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	81.14
PF13431	34	TPR_17: Tetratricopeptide repeat	81.05
PF13929	292	mRNA_stabil: mRNA stabilisation	80.67

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.3e-47  Score=378.40  Aligned_cols=284  Identities=19%  Similarity=0.274  Sum_probs=220.0

Q ss_pred             cchhHHHHHHHHHhcCCHHHHHHHhcCCC-----CchhhHHHHHHHHHHHhhccCcchhhHHhH---------HHHHHHH
Q 045379           62 LSPTAQQILRFVQREVDSNTIWDAFDSLP-----PTHATWDDLINVSVQLRLNKKWDPIVLMSC---------VSILLIE  127 (352)
Q Consensus        62 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---------~~~~li~  127 (352)
                      ...++++|+.+|+++|+++.|+++|++|.     ||..+|+.++.+|++.|+.+.+.+++..+.         +||.||.
T Consensus       471 D~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~  550 (1060)
T PLN03218        471 DCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALIS  550 (1060)
T ss_pred             CHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            44467777777777777777777777764     677777777777777777777766666654         7777777


Q ss_pred             HHHccCCHHHHHHHHHHHHh--CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 045379          128 AYGQKSLHKKAEFTYLELLD--SRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNP  205 (352)
Q Consensus       128 ~~~~~g~~~~a~~l~~~m~~--~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  205 (352)
                      +|++.|++++|.++|++|.+  .|+.||..+|+.+|.+|++.|++++|.++|++|.+.|++|+..+|+.+|.+|++.|++
T Consensus       551 a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~  630 (1060)
T PLN03218        551 ACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDW  630 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCH
Confidence            77777777777777777765  5677777777777777777777777777777777777777777788888888887888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          206 QKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      ++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|++||..+|+.||.+|++.|++++|.++|++|
T Consensus       631 deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM  710 (1060)
T PLN03218        631 DFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI  710 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            88888888887777777877888888888888888888888888877777788888888888888888888888888887


Q ss_pred             HHCCCCCCHHHHHHHHHHHH----------HHHHH-hcCCCCCHHHHHHHHHHHHHcCCcchhHHHHHHHh
Q 045379          286 QGAGIEPDVYAYNALMEAYR----------LISRM-HMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVEL  345 (352)
Q Consensus       286 ~~~~~~p~~~~~~~li~a~~----------~~~~m-~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~~~~  345 (352)
                      .+.|+.||..+||.||.+|+          +|++| ..|+.||..||+++|.+|++.|++++|.++|..+.
T Consensus       711 ~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~  781 (1060)
T PLN03218        711 KSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAK  781 (1060)
T ss_pred             HHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            77777788888888887776          77777 77778888888888888888888888887776443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=7.7e-47  Score=373.02  Aligned_cols=285  Identities=17%  Similarity=0.229  Sum_probs=264.3

Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHhcCCC-----CchhhHHHHHHHHHHHhhccCcchhhHHhH---------HHHHHHHH
Q 045379           63 SPTAQQILRFVQREVDSNTIWDAFDSLP-----PTHATWDDLINVSVQLRLNKKWDPIVLMSC---------VSILLIEA  128 (352)
Q Consensus        63 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---------~~~~li~~  128 (352)
                      ..+|+.|+..|++.|+++.|.++|+.|.     ||..+|++++++|++.|+.+.+.++++.+.         +||+||++
T Consensus       437 ~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~g  516 (1060)
T PLN03218        437 LSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDG  516 (1060)
T ss_pred             HHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            3478999999999999999999998774     789999999999999999888888887766         99999999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--CCCCCCHHHHHHHHHHHHcCCCHH
Q 045379          129 YGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRK--YGLPPSAVVYNSYIDGLLKGGNPQ  206 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~g~~~~~~~~~~li~~~~~~g~~~  206 (352)
                      |++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+  .|+.||..+|+++|.+|++.|+++
T Consensus       517 y~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ld  596 (1060)
T PLN03218        517 CARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVD  596 (1060)
T ss_pred             HHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHH
Confidence            999999999999999999999999999999999999999999999999999976  678999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          207 KAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       207 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                      +|.++|++|.+.|+.|+..+||.+|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|.
T Consensus       597 eA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~  676 (1060)
T PLN03218        597 RAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDAR  676 (1060)
T ss_pred             HHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HCCCCCCHHHHHHHHHHHH----------HHHHH-hcCCCCCHHHHHHHHHHHHHcCCcchhHHHHHHHhhc
Q 045379          287 GAGIEPDVYAYNALMEAYR----------LISRM-HMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVELSV  347 (352)
Q Consensus       287 ~~~~~p~~~~~~~li~a~~----------~~~~m-~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~~~~~~  347 (352)
                      +.|+.||..+|+.+|.+|+          +|+.| ..++.||..+|++||.+|++.|++++|.++|..|...
T Consensus       677 k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~  748 (1060)
T PLN03218        677 KQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL  748 (1060)
T ss_pred             HcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            9999999999999999998          89999 7889999999999999999999999999999866544

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

Probab=100.00  E-value=5.5e-46  Score=362.43  Aligned_cols=275  Identities=20%  Similarity=0.296  Sum_probs=236.0

Q ss_pred             cchhHHHHHHHHHhcCCHHHHHHHhcCCC-CchhhHHHHHHHHHHHhhccCcchhhHHhH--------------------
Q 045379           62 LSPTAQQILRFVQREVDSNTIWDAFDSLP-PTHATWDDLINVSVQLRLNKKWDPIVLMSC--------------------  120 (352)
Q Consensus        62 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------------------  120 (352)
                      ...++|.|+.+|+++|++++|.++|++|+ ||.++||+++++|++.|+.+++..++..+.                    
T Consensus       157 ~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~  236 (697)
T PLN03081        157 DQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAG  236 (697)
T ss_pred             chHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhc
Confidence            34589999999999999999999999998 899999999999999998888877776652                    


Q ss_pred             ------------------------HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 045379          121 ------------------------VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAV  176 (352)
Q Consensus       121 ------------------------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  176 (352)
                                              +||+||++|++.|++++|.++|++|.+    +|..+|+.+|.+|++.|++++|.++
T Consensus       237 ~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~l  312 (697)
T PLN03081        237 LGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCL  312 (697)
T ss_pred             CCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHH
Confidence                                    568888888888888888888888865    6888888888888888888888888


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 045379          177 FREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCK  256 (352)
Q Consensus       177 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~  256 (352)
                      |++|.+.|+.||..||++++.+|++.|++++|.+++++|.+.|+.||..++|.||.+|++.|++++|.++|++|.    +
T Consensus       313 f~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~  388 (697)
T PLN03081        313 YYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----R  388 (697)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----C
Confidence            888888888888888888888888888888888888888888888888888888888888888888888888885    4


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHH--hcCCCCCHHHHHHH
Q 045379          257 PNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR----------LISRM--HMGCEPDRASYNIM  324 (352)
Q Consensus       257 p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m--~~~~~p~~~~~~~l  324 (352)
                      ||..+||.||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|+          +|+.|  ..++.|+..+|+++
T Consensus       389 ~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~l  468 (697)
T PLN03081        389 KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACM  468 (697)
T ss_pred             CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhH
Confidence            6888888888888888888888888888888888888888888888887          78888  35888888888888


Q ss_pred             HHHHHHcCCcchhHHHHHHH
Q 045379          325 VDAYGRAGLHEGKCSYSLVE  344 (352)
Q Consensus       325 i~a~~~~g~~~~A~~~~~~~  344 (352)
                      |++|++.|++++|.+++..+
T Consensus       469 i~~l~r~G~~~eA~~~~~~~  488 (697)
T PLN03081        469 IELLGREGLLDEAYAMIRRA  488 (697)
T ss_pred             HHHHHhcCCHHHHHHHHHHC
Confidence            88888888888888887644

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.6e-43  Score=352.77  Aligned_cols=294  Identities=20%  Similarity=0.277  Sum_probs=201.3

Q ss_pred             ccccccCccccccccccCcCcCcchhHHHHHHHHHhcCCHHHHHHHhcCCC-CchhhHHHHHHHHHHHhhccCcchhhHH
Q 045379           40 CGSLRGKGWKYGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLP-PTHATWDDLINVSVQLRLNKKWDPIVLM  118 (352)
Q Consensus        40 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~  118 (352)
                      +.++|+.+.+.+       +.....++|+|+.+|+++|+++.|.++|++|+ +|.++||+++.+|.+.|+.+++..++..
T Consensus       206 ~~~~~~~~~~~g-------~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~  278 (857)
T PLN03077        206 GREVHAHVVRFG-------FELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFT  278 (857)
T ss_pred             HHHHHHHHHHcC-------CCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHH
Confidence            457777777665       22233488999999999999999999999998 8999999999999888777666665554


Q ss_pred             hH---------------------------------------------------------------------------HHH
Q 045379          119 SC---------------------------------------------------------------------------VSI  123 (352)
Q Consensus       119 ~~---------------------------------------------------------------------------~~~  123 (352)
                      +.                                                                           +||
T Consensus       279 M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n  358 (857)
T PLN03077        279 MRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWT  358 (857)
T ss_pred             HHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHH
Confidence            42                                                                           444


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC
Q 045379          124 LLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGG  203 (352)
Q Consensus       124 ~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  203 (352)
                      ++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.|.+.|+.|+..+||+||++|++.|
T Consensus       359 ~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g  438 (857)
T PLN03077        359 AMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCK  438 (857)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcC
Confidence            44445555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC----------------------------
Q 045379          204 NPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKC----------------------------  255 (352)
Q Consensus       204 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~----------------------------  255 (352)
                      ++++|.++|++|.+    +|..+||.+|.+|++.|+.++|+++|++|.. ++                            
T Consensus       439 ~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~  513 (857)
T PLN03077        439 CIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHA  513 (857)
T ss_pred             CHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHH
Confidence            55555555555542    2344444444444444444444444544432 23                            


Q ss_pred             -------------------------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 045379          256 -------------------------------------KPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYN  298 (352)
Q Consensus       256 -------------------------------------~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~  298 (352)
                                                           +||..+||++|.+|++.|+.++|.++|++|.+.|+.||..||+
T Consensus       514 ~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~  593 (857)
T PLN03077        514 HVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFI  593 (857)
T ss_pred             HHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHH
Confidence                                                 3455667788888888999999999999999999999999999


Q ss_pred             HHHHHHH----------HHHHH--hcCCCCCHHHHHHHHHHHHHcCCcchhHHHHHHHh
Q 045379          299 ALMEAYR----------LISRM--HMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVEL  345 (352)
Q Consensus       299 ~li~a~~----------~~~~m--~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~~~~  345 (352)
                      .+|.+|+          +|+.|  ..|+.|+..+|++++++|++.|++++|.+++.-||
T Consensus       594 ~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~  652 (857)
T PLN03077        594 SLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP  652 (857)
T ss_pred             HHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCC
Confidence            9998887          88888  57899999999999999999999999999987554

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

Probab=100.00  E-value=3.9e-43  Score=342.43  Aligned_cols=288  Identities=16%  Similarity=0.223  Sum_probs=203.1

Q ss_pred             cCcchhHHHHHHHHHhcCCHHHHHHHhcCCC-----CchhhHHHHHHHHHHHhhccCcchhhHHhH-----HHHHHHHHH
Q 045379           60 PVLSPTAQQILRFVQREVDSNTIWDAFDSLP-----PTHATWDDLINVSVQLRLNKKWDPIVLMSC-----VSILLIEAY  129 (352)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-----~~~~li~~~  129 (352)
                      .....++++++.+|.+.|+++.|.+++..|.     ||..+||.+++.|.+.|+.+.+.++++.+.     +||++|.+|
T Consensus       120 ~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~  199 (697)
T PLN03081        120 TLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGL  199 (697)
T ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHH
Confidence            3345588999999999999999999997663     899999999999999998888888877665     999999999


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH--------------------
Q 045379          130 GQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSA--------------------  189 (352)
Q Consensus       130 ~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~--------------------  189 (352)
                      ++.|++++|.++|++|.+.|+.|+..+|+.++.+|++.|+.+.+.+++..+.+.|+.||.                    
T Consensus       200 ~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~  279 (697)
T PLN03081        200 VDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDAR  279 (697)
T ss_pred             HHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHH
Confidence            999999999999999998888888777766655555555555555555555555544444                    


Q ss_pred             -----------HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 045379          190 -----------VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN  258 (352)
Q Consensus       190 -----------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~  258 (352)
                                 .+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++.+|.+.|+.||
T Consensus       280 ~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d  359 (697)
T PLN03081        280 CVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLD  359 (697)
T ss_pred             HHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCC
Confidence                       455555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHH-hcCCCCCHHHHHHHHHH
Q 045379          259 ICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR----------LISRM-HMGCEPDRASYNIMVDA  327 (352)
Q Consensus       259 ~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m-~~~~~p~~~~~~~li~a  327 (352)
                      ..+|+.||.+|++.|++++|.++|++|.    .||..+||+||.+|+          +|++| ..|+.||..||+++|.+
T Consensus       360 ~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a  435 (697)
T PLN03081        360 IVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA  435 (697)
T ss_pred             eeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            5555555555555555555555555553    355566666665555          89999 88999999999999999


Q ss_pred             HHHcCCcchhHHHHHHH-------hhccCCC
Q 045379          328 YGRAGLHEGKCSYSLVE-------LSVKHYP  351 (352)
Q Consensus       328 ~~~~g~~~~A~~~~~~~-------~~~~~y~  351 (352)
                      |++.|++++|.++|..|       |+..||.
T Consensus       436 ~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~  466 (697)
T PLN03081        436 CRYSGLSEQGWEIFQSMSENHRIKPRAMHYA  466 (697)
T ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCCccchH
Confidence            99999999999999744       5555664

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.5e-42  Score=344.10  Aligned_cols=276  Identities=15%  Similarity=0.184  Sum_probs=232.8

Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHhcCCC-CchhhHHHHHHHHHHHhhccCcchhhHHhH---------------------
Q 045379           63 SPTAQQILRFVQREVDSNTIWDAFDSLP-PTHATWDDLINVSVQLRLNKKWDPIVLMSC---------------------  120 (352)
Q Consensus        63 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---------------------  120 (352)
                      ..++|+|+.+|+++|+++.|+++|++|+ ||..+||+++++|.+.|+.+.+..++..+.                     
T Consensus       121 ~~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~  200 (857)
T PLN03077        121 VRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGI  200 (857)
T ss_pred             chHHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCc
Confidence            3477999999999999999999999998 899999999999999888777766665542                     


Q ss_pred             -----------------------HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 045379          121 -----------------------VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVF  177 (352)
Q Consensus       121 -----------------------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  177 (352)
                                             +||+||.+|++.|++++|.++|++|.+    ||..+||.+|.+|++.|++++|.++|
T Consensus       201 ~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf  276 (857)
T PLN03077        201 PDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELF  276 (857)
T ss_pred             cchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHH
Confidence                                   567888888888888888888888864    77888888888888888888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 045379          178 REMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKP  257 (352)
Q Consensus       178 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p  257 (352)
                      ++|.+.|+.||..||+.+|.+|++.|+++.|.+++..|.+.|+.||..+||.||.+|++.|++++|.++|++|.    .|
T Consensus       277 ~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~  352 (857)
T PLN03077        277 FTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TK  352 (857)
T ss_pred             HHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CC
Confidence            88888888888888888888888888888888888888888888888888888888888888888888888885    46


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHH-hcCCCCCHHHHHHHHH
Q 045379          258 NICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR----------LISRM-HMGCEPDRASYNIMVD  326 (352)
Q Consensus       258 ~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m-~~~~~p~~~~~~~li~  326 (352)
                      |..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|+          +++.| ..|+.|+..+|++||+
T Consensus       353 d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~  432 (857)
T PLN03077        353 DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIE  432 (857)
T ss_pred             CeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            788888888888888888888888888888888888888888888876          77777 7788888888888888


Q ss_pred             HHHHcCCcchhHHHHHHHhh
Q 045379          327 AYGRAGLHEGKCSYSLVELS  346 (352)
Q Consensus       327 a~~~~g~~~~A~~~~~~~~~  346 (352)
                      +|++.|++++|.++|..++.
T Consensus       433 ~y~k~g~~~~A~~vf~~m~~  452 (857)
T PLN03077        433 MYSKCKCIDKALEVFHNIPE  452 (857)
T ss_pred             HHHHcCCHHHHHHHHHhCCC
Confidence            88888888888888875543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.80  E-value=1.8e-16  Score=145.17  Aligned_cols=268  Identities=16%  Similarity=0.062  Sum_probs=210.7

Q ss_pred             HHHHHhcCCHHHHHHHhcCCC----CchhhHHHHHHHHHHHhhccCcchhhHHh------------HHHHHHHHHHHccC
Q 045379           70 LRFVQREVDSNTIWDAFDSLP----PTHATWDDLINVSVQLRLNKKWDPIVLMS------------CVSILLIEAYGQKS  133 (352)
Q Consensus        70 ~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~------------~~~~~li~~~~~~g  133 (352)
                      ...+...|++++|...|+++.    .+..++..+...+...++.+.+..+++..            ..+..+...|.+.|
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g  121 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAG  121 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCC
Confidence            344567789999999998764    45667888888888777766655544332            26788899999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHcCCCHHHHH
Q 045379          134 LHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS----AVVYNSYIDGLLKGGNPQKAV  209 (352)
Q Consensus       134 ~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~~g~~~~a~  209 (352)
                      ++++|.++|+++.+.. +++..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..+...+.+.|++++|.
T Consensus       122 ~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  200 (389)
T PRK11788        122 LLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAAR  200 (389)
T ss_pred             CHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHH
Confidence            9999999999998753 34677999999999999999999999999988653332    224566778889999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 045379          210 EIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAG  289 (352)
Q Consensus       210 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~  289 (352)
                      ..|+++.+.. +.+...+..+...+.+.|++++|.++|+++.+.+......+++.+..+|.+.|++++|.+.++++.+. 
T Consensus       201 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~-  278 (389)
T PRK11788        201 ALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE-  278 (389)
T ss_pred             HHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            9999998763 33567888899999999999999999999987642223467889999999999999999999999876 


Q ss_pred             CCCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHH---cCCcchhHHHHH
Q 045379          290 IEPDVYAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGR---AGLHEGKCSYSL  342 (352)
Q Consensus       290 ~~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~---~g~~~~A~~~~~  342 (352)
                       .|+...+..+...+.          +++.+.. ..|+..++..++..+..   .|+.+++..+|.
T Consensus       279 -~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~-~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~  342 (389)
T PRK11788        279 -YPGADLLLALAQLLEEQEGPEAAQALLREQLR-RHPSLRGFHRLLDYHLAEAEEGRAKESLLLLR  342 (389)
T ss_pred             -CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHH-hCcCHHHHHHHHHHhhhccCCccchhHHHHHH
Confidence             466666666666554          5555511 26888899988888775   568999998886

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.80  E-value=2.4e-17  Score=150.97  Aligned_cols=270  Identities=14%  Similarity=0.115  Sum_probs=216.6

Q ss_pred             CcCcchhHHHHHHHHHhcCCHHHHHHHhcCCC--Cc------hhhHHHHHHHHHHHhhccCcchhhHHhH--------HH
Q 045379           59 FPVLSPTAQQILRFVQREVDSNTIWDAFDSLP--PT------HATWDDLINVSVQLRLNKKWDPIVLMSC--------VS  122 (352)
Q Consensus        59 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~------~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~  122 (352)
                      .|....++..+...|...|++++|..+++.+.  ++      ...+..+...+...|+.+.+..++....        ++
T Consensus        65 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~  144 (389)
T PRK11788         65 DPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEGDFAEGAL  144 (389)
T ss_pred             CcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCcchHHHH
Confidence            34555678999999999999999999998764  11      2467788888888888777766665543        89


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDSRCIPTE----DTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDG  198 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  198 (352)
                      +.++..+.+.|++++|.+.++.+.+.+..+..    ..+..+...+.+.|++++|...++++.+.. +.+...+..+...
T Consensus       145 ~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~  223 (389)
T PRK11788        145 QQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDL  223 (389)
T ss_pred             HHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHH
Confidence            99999999999999999999999886644322    245677788899999999999999998764 3456788889999


Q ss_pred             HHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 045379          199 LLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEA  278 (352)
Q Consensus       199 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  278 (352)
                      |.+.|++++|.++|+++.+.+......+++.+..+|...|++++|...++++.+.  .|+...+..+...+.+.|++++|
T Consensus       224 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A  301 (389)
T PRK11788        224 ALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAA  301 (389)
T ss_pred             HHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHH
Confidence            9999999999999999987642223467889999999999999999999999876  46777778999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHH-------------HHHHH-hcCCCCCHHHHHHHHHHHHHcCCcchhHH
Q 045379          279 EEIFEQLQGAGIEPDVYAYNALMEAYR-------------LISRM-HMGCEPDRASYNIMVDAYGRAGLHEGKCS  339 (352)
Q Consensus       279 ~~l~~~m~~~~~~p~~~~~~~li~a~~-------------~~~~m-~~~~~p~~~~~~~li~a~~~~g~~~~A~~  339 (352)
                      ..+++++.+.  .|+..+++.++..+.             +++.| ..++.|++.      ..|.++|..-+.+.
T Consensus       302 ~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~------~~c~~cg~~~~~~~  368 (389)
T PRK11788        302 QALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR------YRCRNCGFTARTLY  368 (389)
T ss_pred             HHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC------EECCCCCCCCccce
Confidence            9999998876  689988887775432             57777 666666665      44777776665543

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

Probab=99.76  E-value=2e-15  Score=152.06  Aligned_cols=219  Identities=13%  Similarity=0.110  Sum_probs=125.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHcc
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQK  132 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~  132 (352)
                      .+..++..|.+.|++++|..+++.+    +.+...|..+..++...++.+.+...+....        .+..+...+.+.
T Consensus       569 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  648 (899)
T TIGR02917       569 PALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVM  648 (899)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHc
Confidence            4455566666666666666665544    2445566666666666555554444443322        555666666666


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHH
Q 045379          133 SLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIF  212 (352)
Q Consensus       133 g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~  212 (352)
                      |++++|...|+++.+... .+..++..+...+...|++++|..+++.+.+.+ +.+...+..+...+.+.|++++|...|
T Consensus       649 ~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~  726 (899)
T TIGR02917       649 KNYAKAITSLKRALELKP-DNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAY  726 (899)
T ss_pred             CCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHH
Confidence            666666666666655331 235556666666666666666666666665543 344455555666666666666666666


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          213 QRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       213 ~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      +++.+.+  |+..++..+..++.+.|++++|.+.++++.+.. +.+...+..+...|...|++++|.++|+++.+.
T Consensus       727 ~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  799 (899)
T TIGR02917       727 RKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK  799 (899)
T ss_pred             HHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh
Confidence            6665542  333455555556666666666666665555432 334555555666666666666666666666544

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

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

Probab=99.75  E-value=3.9e-15  Score=150.03  Aligned_cols=271  Identities=15%  Similarity=0.096  Sum_probs=159.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccC
Q 045379           66 AQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKS  133 (352)
Q Consensus        66 ~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g  133 (352)
                      ...++..+...|++++|.+.|+++    |.+..++..+...+...++.+.+...+....        .+..++..|.+.|
T Consensus       502 ~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  581 (899)
T TIGR02917       502 AANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKG  581 (899)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCC
Confidence            334444444444444444444433    1234444444444444444433333332221        4555666666666


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHH
Q 045379          134 LHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQ  213 (352)
Q Consensus       134 ~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~  213 (352)
                      ++++|.++++.+.+.. +.+..+|..+..++...|++++|...|+++.+.. +.+...+..+...|.+.|++++|...|+
T Consensus       582 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  659 (899)
T TIGR02917       582 QLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLK  659 (899)
T ss_pred             CHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            6666666666665432 3455667777777777777777777777766543 3345566666677777777777777777


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 045379          214 RMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPD  293 (352)
Q Consensus       214 ~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~  293 (352)
                      ++.+.. +.+..++..+...+...|++++|.++++.+.+.+ +++...+..+...+...|++++|.+.|.++.+.+  |+
T Consensus       660 ~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~  735 (899)
T TIGR02917       660 RALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PS  735 (899)
T ss_pred             HHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CC
Confidence            766542 3345666677777777777777777777766553 3455566667777777777777777777776553  33


Q ss_pred             HHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          294 VYAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       294 ~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ..++..+..++.          .++.+....+.+...+..+...|...|++++|.+.|.
T Consensus       736 ~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  794 (899)
T TIGR02917       736 SQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYR  794 (899)
T ss_pred             chHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            344444444443          3444423345566677777777777777777777764

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=99.63  E-value=2e-12  Score=125.31  Aligned_cols=277  Identities=12%  Similarity=0.001  Sum_probs=209.2

Q ss_pred             CcCcchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHH
Q 045379           59 FPVLSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLI  126 (352)
Q Consensus        59 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li  126 (352)
                      .|........++......|+++.|...|+++    |.+...|..+...+...|+.+.+...+....        .+..+.
T Consensus        72 ~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la  151 (656)
T PRK15174         72 AKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHL  151 (656)
T ss_pred             CCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence            3444456667777777899999999999876    3567788888888888887776666554443        788899


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHH
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQ  206 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  206 (352)
                      ..+...|++++|...++.+......+ ...+..+ ..+...|++++|...++.+.+..-.++......+...+.+.|+++
T Consensus       152 ~~l~~~g~~~eA~~~~~~~~~~~P~~-~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~  229 (656)
T PRK15174        152 RTLVLMDKELQAISLARTQAQEVPPR-GDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQ  229 (656)
T ss_pred             HHHHHCCChHHHHHHHHHHHHhCCCC-HHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHH
Confidence            99999999999999999887655433 3333333 347889999999999999877643344555666778889999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH----HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 045379          207 KAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFM----ALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIF  282 (352)
Q Consensus       207 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~----a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~  282 (352)
                      +|...+++..+.. +.+...+..+...+...|++++    |+..|++..+.. +.+...+..+...+.+.|++++|...+
T Consensus       230 eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l  307 (656)
T PRK15174        230 EAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLL  307 (656)
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999998764 4467888899999999999986    899999988753 345678999999999999999999999


Q ss_pred             HHHHHCCCCCCH-HHHHHHHHHHH----------HHHHHhcCCCCCH-HHHHHHHHHHHHcCCcchhHHHHH
Q 045379          283 EQLQGAGIEPDV-YAYNALMEAYR----------LISRMHMGCEPDR-ASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       283 ~~m~~~~~~p~~-~~~~~li~a~~----------~~~~m~~~~~p~~-~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ++..+.  .|+. ..+..+..++.          .++.+... .|+. ..+..+..++...|+.++|.+.|.
T Consensus       308 ~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~-~P~~~~~~~~~a~al~~~G~~deA~~~l~  376 (656)
T PRK15174        308 QQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLARE-KGVTSKWNRYAAAALLQAGKTSEAESVFE  376 (656)
T ss_pred             HHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CccchHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            999875  3443 33444444443          55555211 3443 344456778999999999999986

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.60  E-value=1.6e-12  Score=112.78  Aligned_cols=256  Identities=17%  Similarity=0.148  Sum_probs=158.6

Q ss_pred             HHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhH---------HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH
Q 045379           84 DAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSC---------VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTE  154 (352)
Q Consensus        84 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~  154 (352)
                      -+|+..|++..|+.+||.+.++....+++.+++....         +||.+|.+-.-..+    .++..+|....++||.
T Consensus       198 L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl  273 (625)
T KOG4422|consen  198 LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNL  273 (625)
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCch
Confidence            4556667777788888888777766666666655444         77777766443322    6788888888888888


Q ss_pred             HHHHHHHHHHHHcCCHHH----HHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH-HHHHHHHHHH----cCCCC---
Q 045379          155 DTYALLLKAYCMSGLLEK----AEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQK-AVEIFQRMKR----DCCQP---  222 (352)
Q Consensus       155 ~~~~~li~~~~~~g~~~~----a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~----~~~~~---  222 (352)
                      .|+|.++++.++.|+++.    |.+++.+|++.|+.|...+|..+|..+++-++..+ |..++.+...    +.++|   
T Consensus       274 ~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p  353 (625)
T KOG4422|consen  274 FTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITP  353 (625)
T ss_pred             HhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCC
Confidence            888888888888887765    45677788888888888888888888888777644 4444433322    22222   


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHH------------------------------------------HhCCCCCCH
Q 045379          223 -STETYTLMINLYGKASKSFMALKLFNEM------------------------------------------RSHKCKPNI  259 (352)
Q Consensus       223 -~~~~~~~li~~~~~~g~~~~a~~l~~~m------------------------------------------~~~g~~p~~  259 (352)
                       |..-|...++.|.+..+.+-|.++-.-+                                          .-.-+-|+.
T Consensus       354 ~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~  433 (625)
T KOG4422|consen  354 TDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHS  433 (625)
T ss_pred             chhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCc
Confidence             3344555566666665555555543333                                          222223555


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH----------------------HH--H-------HH
Q 045379          260 CTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEA----------------------YR--L-------IS  308 (352)
Q Consensus       260 ~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a----------------------~~--~-------~~  308 (352)
                      .+...++++..-.|+++-.-+++.++...|..-....-..++.-                      |.  .       -.
T Consensus       434 ~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~  513 (625)
T KOG4422|consen  434 QTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPI  513 (625)
T ss_pred             hhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            55666666666666666666666666554422211111111111                      11  1       11


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHHHH
Q 045379          309 RMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVE  344 (352)
Q Consensus       309 ~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~~~  344 (352)
                      +| ..........+.+.-.+.+.|..++|.++|..-
T Consensus       514 R~-r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~  548 (625)
T KOG4422|consen  514 RQ-RAQDWPATSLNCIAILLLRAGRTQKAWEMLGLF  548 (625)
T ss_pred             HH-HhccCChhHHHHHHHHHHHcchHHHHHHHHHHH
Confidence            11 133456667788888999999999999998643

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.53  E-value=1.7e-11  Score=106.56  Aligned_cols=222  Identities=18%  Similarity=0.176  Sum_probs=175.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      +|.+||.+.++--..+.|.++|++-.....+.+..+||.+|.+-.-...    .+++.+|....+.||..|+|+++.+..
T Consensus       209 t~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~c~a  284 (625)
T KOG4422|consen  209 TVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLSCAA  284 (625)
T ss_pred             hHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHHHHH
Confidence            9999999999999999999999999988889999999999987654333    789999999999999999999999999


Q ss_pred             cCCCHHH----HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHHH----HhCCCCC----CHHHHHHHHH
Q 045379          201 KGGNPQK----AVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFM-ALKLFNEM----RSHKCKP----NICTYTALVN  267 (352)
Q Consensus       201 ~~g~~~~----a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~l~~~m----~~~g~~p----~~~t~~~li~  267 (352)
                      +.|+++.    |.+++.+|++-|+.|+..+|..+|.-+++.++..+ |..++.++    ..+..+|    |..-|...+.
T Consensus       285 kfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~  364 (625)
T KOG4422|consen  285 KFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMS  364 (625)
T ss_pred             HhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHH
Confidence            9998765    56778899999999999999999999999999854 44444443    3333333    3445778889


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC---C-CCCCH---HHHHHHHHHHH----------HHHHH-hcCCCCCHHHHHHHHHHHH
Q 045379          268 AFAREGLCEEAEEIFEQLQGA---G-IEPDV---YAYNALMEAYR----------LISRM-HMGCEPDRASYNIMVDAYG  329 (352)
Q Consensus       268 ~~~~~g~~~~a~~l~~~m~~~---~-~~p~~---~~~~~li~a~~----------~~~~m-~~~~~p~~~~~~~li~a~~  329 (352)
                      .|.+..+.+.|.++..-+...   . +.|+.   .-|..+..+.+          .++.| ..-.-|+..+...+++|..
T Consensus       365 Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~  444 (625)
T KOG4422|consen  365 ICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALD  444 (625)
T ss_pred             HHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHh
Confidence            999999999999998877643   1 23332   12333333333          55566 5666789999999999999


Q ss_pred             HcCCcchhHHHHHHHhh
Q 045379          330 RAGLHEGKCSYSLVELS  346 (352)
Q Consensus       330 ~~g~~~~A~~~~~~~~~  346 (352)
                      ..|+++-.-+++..+..
T Consensus       445 v~~~~e~ipRiw~D~~~  461 (625)
T KOG4422|consen  445 VANRLEVIPRIWKDSKE  461 (625)
T ss_pred             hcCcchhHHHHHHHHHH
Confidence            99999988888764443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.52  E-value=4.1e-11  Score=116.23  Aligned_cols=270  Identities=10%  Similarity=-0.017  Sum_probs=206.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCC
Q 045379           67 QQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSL  134 (352)
Q Consensus        67 ~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~  134 (352)
                      ..++....+.|++++|..+++..    |.+...+..++.+....|+.+.+...++...        .|..+...+.+.|+
T Consensus        46 ~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~  125 (656)
T PRK15174         46 ILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQ  125 (656)
T ss_pred             HHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCC
Confidence            45566677899999998887654    3455566666666666777766666655544        78889999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHH
Q 045379          135 HKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQR  214 (352)
Q Consensus       135 ~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  214 (352)
                      +++|...+++..+... .+...+..+...+...|++++|...++.+....-. +...+..+ ..+...|++++|...++.
T Consensus       126 ~~~Ai~~l~~Al~l~P-~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~  202 (656)
T PRK15174        126 YATVADLAEQAWLAFS-GNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARA  202 (656)
T ss_pred             HHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHH
Confidence            9999999999987532 35668889999999999999999999988765432 33334333 347889999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH----HHHHHHHHHHCCC
Q 045379          215 MKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEE----AEEIFEQLQGAGI  290 (352)
Q Consensus       215 m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~----a~~l~~~m~~~~~  290 (352)
                      +.+..-.++......+..++...|++++|+..+++..... +.+...+..+...+...|++++    |...|++..+.  
T Consensus       203 ~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--  279 (656)
T PRK15174        203 LLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF--  279 (656)
T ss_pred             HHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh--
Confidence            8876433445556667788999999999999999998764 4457788889999999999986    89999998865  


Q ss_pred             CCC-HHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          291 EPD-VYAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       291 ~p~-~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .|+ ...+..+...+.          .++.....-+.+...+..+..+|.+.|++++|.+.|.
T Consensus       280 ~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~  342 (656)
T PRK15174        280 NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFV  342 (656)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            344 455555554444          5555522334567788889999999999999999986

>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=99.47  E-value=2.7e-10  Score=110.38  Aligned_cols=272  Identities=12%  Similarity=-0.005  Sum_probs=200.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHhcCCC---CchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCCH
Q 045379           67 QQILRFVQREVDSNTIWDAFDSLP---PTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSLH  135 (352)
Q Consensus        67 ~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~  135 (352)
                      ......|.+.|++++|+..|++..   |+...|..+..++...++.+.+........        +|..+..+|...|++
T Consensus       131 k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~lg~~  210 (615)
T TIGR00990       131 KEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKY  210 (615)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCH
Confidence            466778889999999999998643   778888888888888877655544433322        888899999999999


Q ss_pred             HHHHHHHHHHHhCCC----------------------------C----CCHHHHHHHH----------------------
Q 045379          136 KKAEFTYLELLDSRC----------------------------I----PTEDTYALLL----------------------  161 (352)
Q Consensus       136 ~~a~~l~~~m~~~~~----------------------------~----p~~~~~~~li----------------------  161 (352)
                      ++|+.-|......+.                            .    |.........                      
T Consensus       211 ~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  290 (615)
T TIGR00990       211 ADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEET  290 (615)
T ss_pred             HHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccccccc
Confidence            999876654332110                            0    1111110000                      


Q ss_pred             -----HHH------HHcCCHHHHHHHHHHHHHCC-C-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 045379          162 -----KAY------CMSGLLEKAEAVFREMRKYG-L-PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYT  228 (352)
Q Consensus       162 -----~~~------~~~g~~~~a~~~~~~m~~~g-~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  228 (352)
                           ..+      ...+++++|.+.|+...+.+ . +.....++.+...+...|++++|...|++..+.. +-+..+|.
T Consensus       291 ~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~  369 (615)
T TIGR00990       291 GNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYI  369 (615)
T ss_pred             ccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHH
Confidence                 000      12357889999999988765 2 3345678888889999999999999999998763 22466888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHH--
Q 045379          229 LMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPD-VYAYNALMEAYR--  305 (352)
Q Consensus       229 ~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~~~~~li~a~~--  305 (352)
                      .+...+...|++++|+..|++..+.. +.+...|..+...+...|++++|...|++..+.  .|+ ...+..+..++.  
T Consensus       370 ~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~~la~~~~~~  446 (615)
T TIGR00990       370 KRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHIQLGVTQYKE  446 (615)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHHHHHHHHHHC
Confidence            99999999999999999999997763 345788999999999999999999999999875  343 344444333332  


Q ss_pred             --------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          306 --------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       306 --------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                              .++......+-+...++.+..++...|++++|.+.|.
T Consensus       447 g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~  491 (615)
T TIGR00990       447 GSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFD  491 (615)
T ss_pred             CCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHH
Confidence                    5555533445578899999999999999999999986

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

Probab=99.47  E-value=6.4e-13  Score=116.00  Aligned_cols=245  Identities=16%  Similarity=0.104  Sum_probs=108.7

Q ss_pred             HHHHHHHhcCCHHHHHHHhcC-C----C-CchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccC
Q 045379           68 QILRFVQREVDSNTIWDAFDS-L----P-PTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKS  133 (352)
Q Consensus        68 ~l~~~~~~~g~~~~A~~~~~~-~----~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g  133 (352)
                      .+...+.+.|++++|++++++ .    + .|..-|..+...+...++.+.+..+++...        .+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            557788899999999999953 2    2 345556666666666777766666655444        56666666 6889


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHcCCCHHHHHHHH
Q 045379          134 LHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY-GLPPSAVVYNSYIDGLLKGGNPQKAVEIF  212 (352)
Q Consensus       134 ~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~a~~~~  212 (352)
                      ++++|.+++....+..  +++..+...+..+.+.++++++.++++.+.+. ..+.+...|..+...+.+.|+.++|.+.+
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            9999999888776543  56677888888899999999999999987753 24567788888889999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 045379          213 QRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEP  292 (352)
Q Consensus       213 ~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p  292 (352)
                      ++..+.. +-|....+.++..+...|+.+++.++++...+.. +.|...+..+..+|...|+.++|+.+|++..+..   
T Consensus       170 ~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~---  244 (280)
T PF13429_consen  170 RKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN---  244 (280)
T ss_dssp             HHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS---
T ss_pred             HHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc---
Confidence            9988862 2357788889999999999999888888876653 4455678888999999999999999999987541   


Q ss_pred             CHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          293 DVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       293 ~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                                            +.|..+...+.+++...|+.++|.++..
T Consensus       245 ----------------------p~d~~~~~~~a~~l~~~g~~~~A~~~~~  272 (280)
T PF13429_consen  245 ----------------------PDDPLWLLAYADALEQAGRKDEALRLRR  272 (280)
T ss_dssp             ----------------------TT-HHHHHHHHHHHT-------------
T ss_pred             ----------------------cccccccccccccccccccccccccccc
Confidence                                  3488888999999999999999998864

>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=99.45  E-value=8.5e-10  Score=106.98  Aligned_cols=217  Identities=13%  Similarity=-0.011  Sum_probs=170.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT-EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      .|+.+...+...|++++|+..|++..+..  |+ ..+|..+...+...|++++|...|++..+.. +.+..++..+...+
T Consensus       333 a~~~lg~~~~~~g~~~eA~~~~~kal~l~--P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~  409 (615)
T TIGR00990       333 ALNLRGTFKCLKGKHLEALADLSKSIELD--PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLH  409 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            67777888889999999999999998754  44 6688899999999999999999999988763 45678899999999


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  279 (352)
                      ...|++++|...|++..+.. +.+...+..+...+.+.|++++|+..|++..+.. +-+...++.+...+...|++++|.
T Consensus       410 ~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~  487 (615)
T TIGR00990       410 FIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAI  487 (615)
T ss_pred             HHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHH
Confidence            99999999999999998864 3467788889999999999999999999988652 345778999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHH---HHHHHH-------------HHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          280 EIFEQLQGAGIEPDVY---AYNALM-------------EAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       280 ~l~~~m~~~~~~p~~~---~~~~li-------------~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ..|++..+..-..+..   ....+.             .|...+++....-+.+...+..+...+.+.|++++|.++|.
T Consensus       488 ~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e  566 (615)
T TIGR00990       488 EKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFE  566 (615)
T ss_pred             HHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            9999987653211111   111111             11223444311223455678899999999999999999986

>PF13041 PPR_2: PPR repeat family

Probab=99.44  E-value=3.2e-13  Score=84.64  Aligned_cols=49  Identities=43%  Similarity=0.615  Sum_probs=21.8

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 045379          222 PSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFA  270 (352)
Q Consensus       222 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~  270 (352)
                      ||+.+||.+|.+|++.|++++|.++|++|.+.|++||..||+.+|++|+
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            3444444444444444444444444444444444444444444444443

>PF13041 PPR_2: PPR repeat family

Probab=99.43  E-value=4.7e-13  Score=83.88  Aligned_cols=49  Identities=41%  Similarity=0.775  Sum_probs=26.7

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       152 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      ||..+||++|++|++.|++++|.++|++|++.|++||..||+.+|++|+
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

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

Probab=99.34  E-value=6.5e-10  Score=101.07  Aligned_cols=276  Identities=14%  Similarity=0.155  Sum_probs=183.9

Q ss_pred             CcCcchhHHHHHHHHHhcCCHHHHHHHhcCCC----CchhhHHHHHHHHHHHhhccCcchhhHHhH--------------
Q 045379           59 FPVLSPTAQQILRFVQREVDSNTIWDAFDSLP----PTHATWDDLINVSVQLRLNKKWDPIVLMSC--------------  120 (352)
Q Consensus        59 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------------  120 (352)
                      .|.-...|..+...+-..|++++|+..+..+-    ..+..|..+..++...|+...+-..+....              
T Consensus       112 ~~q~ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lg  191 (966)
T KOG4626|consen  112 NPQGAEAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLG  191 (966)
T ss_pred             cchHHHHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchh
Confidence            34445577888888888999999988876542    345566666666655554443333221111              


Q ss_pred             ----------------------------HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcC---
Q 045379          121 ----------------------------VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT-EDTYALLLKAYCMSG---  168 (352)
Q Consensus       121 ----------------------------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~~~~~li~~~~~~g---  168 (352)
                                                  .|+.|...+-.+|+...|+.-|++..+-.  |+ ...|-.|-..|...+   
T Consensus       192 nLlka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld--P~f~dAYiNLGnV~ke~~~~d  269 (966)
T KOG4626|consen  192 NLLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD--PNFLDAYINLGNVYKEARIFD  269 (966)
T ss_pred             HHHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCC--CcchHHHhhHHHHHHHHhcch
Confidence                                        66666666667777777777776665532  33 234555555555444   


Q ss_pred             -------------------------------CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 045379          169 -------------------------------LLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKR  217 (352)
Q Consensus       169 -------------------------------~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  217 (352)
                                                     +.|.|+..|++..+.. +--...|+.|..++-..|++.+|++.|.+.+.
T Consensus       270 ~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~  348 (966)
T KOG4626|consen  270 RAVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALR  348 (966)
T ss_pred             HHHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHH
Confidence                                           4455555554444431 22357888999999999999999999988877


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-H
Q 045379          218 DCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN-ICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDV-Y  295 (352)
Q Consensus       218 ~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~-~  295 (352)
                      .. +-...+.+.|-+.|...|.+++|..+|....+-  .|. ...++.|...|-++|++++|...|++..+  +.|+- .
T Consensus       349 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  349 LC-PNHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFAD  423 (966)
T ss_pred             hC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHH
Confidence            53 335678889999999999999999999877653  444 34688999999999999999999998874  45653 2


Q ss_pred             HHHHHHHHHHHHHHH---------hcCCCCC-HHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          296 AYNALMEAYRLISRM---------HMGCEPD-RASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       296 ~~~~li~a~~~~~~m---------~~~~~p~-~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .|+.+-..|.....|         .-.+.|. ...++.|...|-..|++.+|..-+.
T Consensus       424 a~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~  480 (966)
T KOG4626|consen  424 ALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYR  480 (966)
T ss_pred             HHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHH
Confidence            333333333311111         1234443 5678999999999999999998875

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.34  E-value=3.3e-09  Score=109.77  Aligned_cols=280  Identities=12%  Similarity=0.016  Sum_probs=183.8

Q ss_pred             cCcchhHHHHHHHHHhcCCHHHHHHHhcCCC----CchhhHHHHHHHHHHHhhccCcchhhHH-----------------
Q 045379           60 PVLSPTAQQILRFVQREVDSNTIWDAFDSLP----PTHATWDDLINVSVQLRLNKKWDPIVLM-----------------  118 (352)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~~~~~~~~-----------------  118 (352)
                      |.....+..+...|...|++++|++.|++..    .+...+..+...+.. ++.+++...+..                 
T Consensus       382 P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~~-~~~~~A~~~l~~l~~~~~~~~~~~~~~l~  460 (1157)
T PRK11447        382 NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYRQ-QSPEKALAFIASLSASQRRSIDDIERSLQ  460 (1157)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh-cCHHHHHHHHHhCCHHHHHHHHHHHHHhh
Confidence            3444567788999999999999999998753    445556656555532 222222222211                 


Q ss_pred             hHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045379          119 SCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDG  198 (352)
Q Consensus       119 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  198 (352)
                      ...+..+...+...|++++|.+.|++..+.... +...+..+...+.+.|++++|...++++.+.. +.+...+..+...
T Consensus       461 ~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~  538 (1157)
T PRK11447        461 NDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLY  538 (1157)
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHH
Confidence            114555677788899999999999999876532 56678888899999999999999999987643 2233333333333


Q ss_pred             HHcCCCHHHHHHHHHHHHHc---------------------------------------CCCCCHHHHHHHHHHHHhcCC
Q 045379          199 LLKGGNPQKAVEIFQRMKRD---------------------------------------CCQPSTETYTLMINLYGKASK  239 (352)
Q Consensus       199 ~~~~g~~~~a~~~~~~m~~~---------------------------------------~~~~~~~~~~~li~~~~~~g~  239 (352)
                      +...++.++|...++.+...                                       ..+.+...+..+...+.+.|+
T Consensus       539 l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~  618 (1157)
T PRK11447        539 LSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGD  618 (1157)
T ss_pred             HHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCC
Confidence            44455555555544432111                                       124455666778888888888


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHH----------HHH
Q 045379          240 SFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPD-VYAYNALMEAYR----------LIS  308 (352)
Q Consensus       240 ~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~~~~~li~a~~----------~~~  308 (352)
                      +++|++.|++..+.. +.+...+..+...|...|++++|.+.++.+.+.  .|+ ......+..++.          +++
T Consensus       619 ~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~  695 (1157)
T PRK11447        619 YAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAWAALGDTAAAQRTFN  695 (1157)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            888888888887753 345778888888888889999999888877654  333 233333333332          566


Q ss_pred             HH-hcC--CCC---CHHHHHHHHHHHHHcCCcchhHHHHHHHh
Q 045379          309 RM-HMG--CEP---DRASYNIMVDAYGRAGLHEGKCSYSLVEL  345 (352)
Q Consensus       309 ~m-~~~--~~p---~~~~~~~li~a~~~~g~~~~A~~~~~~~~  345 (352)
                      .+ ...  .+|   +...+..+...+...|++++|++.|....
T Consensus       696 ~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al  738 (1157)
T PRK11447        696 RLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAM  738 (1157)
T ss_pred             HHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            65 221  122   33566677888888899999998887664

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.32  E-value=2.1e-09  Score=90.47  Aligned_cols=199  Identities=17%  Similarity=0.055  Sum_probs=158.5

Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHhcCCC-CchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHH
Q 045379           63 SPTAQQILRFVQREVDSNTIWDAFDSLP-PTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFT  141 (352)
Q Consensus        63 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l  141 (352)
                      ...+..+...|...|++++|...|++.. .++..                       ...+..+...+...|++++|.+.
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~-----------------------~~~~~~la~~~~~~~~~~~A~~~   87 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPDD-----------------------YLAYLALALYYQQLGELEKAEDS   87 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccc-----------------------HHHHHHHHHHHHHcCCHHHHHHH
Confidence            4467888899999999999998887642 11110                       11566677888999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC
Q 045379          142 YLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGL-PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC  220 (352)
Q Consensus       142 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  220 (352)
                      +++..+... .+...+..+...+...|++++|.+.+++..+... +.....+..+...+...|++++|...+++..+.. 
T Consensus        88 ~~~al~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  165 (234)
T TIGR02521        88 FRRALTLNP-NNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-  165 (234)
T ss_pred             HHHHHhhCC-CCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            999987653 3567888888999999999999999999887532 2344567778888999999999999999988763 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          221 QPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       221 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      +.+...+..+...+...|++++|...+++.... .+.+...+..+...+...|+.++|..+.+.+..
T Consensus       166 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       166 PQRPESLLELAELYYLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            335678888999999999999999999998776 345667777888888899999999998887764

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

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

Probab=99.31  E-value=2.3e-11  Score=106.15  Aligned_cols=224  Identities=15%  Similarity=0.103  Sum_probs=115.6

Q ss_pred             cCcchhHHHHHHHHHhcCCHHHHHHHhcCCC----CchhhHHHHHHHHHHHhhccCcchhhHHh-------HHHHHHHHH
Q 045379           60 PVLSPTAQQILRFVQREVDSNTIWDAFDSLP----PTHATWDDLINVSVQLRLNKKWDPIVLMS-------CVSILLIEA  128 (352)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~-------~~~~~li~~  128 (352)
                      |.....+..+...+...|+.+.|...++++.    .++..+..++.. ...++.+.+..+.+..       ..+..++..
T Consensus        41 ~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~  119 (280)
T PF13429_consen   41 PDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDGDPEEALKLAEKAYERDGDPRYLLSALQL  119 (280)
T ss_dssp             ------------------------------------------------------------------------------H-
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccccccccchhhHHHHH
Confidence            3333455667778888999999999999886    244556666666 4556666555544322       167788889


Q ss_pred             HHccCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH
Q 045379          129 YGQKSLHKKAEFTYLELLDSR-CIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQK  207 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  207 (352)
                      +.+.|+++++.++++.+.... .+++...|..+...+.+.|++++|.+.+++..+.. |.+....+.++..+...|+.++
T Consensus       120 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~  198 (280)
T PF13429_consen  120 YYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYDE  198 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHH
Confidence            999999999999999987533 45678889999999999999999999999998863 3467888999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          208 AVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       208 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      +..+++...+.. +.|...+..+..+|...|+.++|...|++..... +.|......+..++...|+.++|.++..++.+
T Consensus       199 ~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  199 AREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT-----------------
T ss_pred             HHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cccccccccccccccccccccccccccccccc
Confidence            999999888764 4566778899999999999999999999988752 45788889999999999999999999887653

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.31  E-value=4.1e-09  Score=88.64  Aligned_cols=194  Identities=19%  Similarity=0.116  Sum_probs=160.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+.
T Consensus        33 ~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~  110 (234)
T TIGR02521        33 IRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLC  110 (234)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHH
Confidence            67778889999999999999999998754 2356788889999999999999999999998764 445678888899999


Q ss_pred             cCCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCC-QPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  279 (352)
                      ..|++++|...+++..+... +.....+..+...+...|++++|.+.+++..... +.+...+..+...+...|++++|.
T Consensus       111 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~  189 (234)
T TIGR02521       111 QQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDAR  189 (234)
T ss_pred             HcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999987532 2245577778889999999999999999988753 335667888999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          280 EIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       280 ~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ..+++..+.  .                       +.+...+..+...+...|+.++|..+..
T Consensus       190 ~~~~~~~~~--~-----------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~  227 (234)
T TIGR02521       190 AYLERYQQT--Y-----------------------NQTAESLWLGIRIARALGDVAAAQRYGA  227 (234)
T ss_pred             HHHHHHHHh--C-----------------------CCCHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            999998764  1                       2355556677788888899999988765

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.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.31  E-value=5.9e-09  Score=104.30  Aligned_cols=182  Identities=14%  Similarity=0.058  Sum_probs=94.5

Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHH
Q 045379          130 GQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAV  209 (352)
Q Consensus       130 ~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~  209 (352)
                      ...|++++|...|+++...  +|+...+..+..++.+.|++++|...+++..+.. +.+...+..+.....+.|++++|.
T Consensus       520 ~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl  596 (987)
T PRK09782        520 YQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELAL  596 (987)
T ss_pred             HHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHH
Confidence            3455555555555554332  2233333444444555555555555555554432 122222222222333345555555


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 045379          210 EIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAG  289 (352)
Q Consensus       210 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~  289 (352)
                      ..+++..+.  .|+...+..+..++.+.|++++|+..+++..... +-+...++.+..++...|+.++|...+++..+. 
T Consensus       597 ~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l-  672 (987)
T PRK09782        597 NDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKG-  672 (987)
T ss_pred             HHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-
Confidence            555555443  2344455555555555555555555555554432 223334444444555555555555555554432 


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          290 IEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       290 ~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                                              .+-+...+..+..++...|++++|+..|.
T Consensus       673 ------------------------~P~~~~a~~nLA~al~~lGd~~eA~~~l~  701 (987)
T PRK09782        673 ------------------------LPDDPALIRQLAYVNQRLDDMAATQHYAR  701 (987)
T ss_pred             ------------------------CCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence                                    23477788899999999999999998886

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.30  E-value=3.3e-09  Score=97.16  Aligned_cols=258  Identities=11%  Similarity=0.058  Sum_probs=157.4

Q ss_pred             cCCHHHHHHHhcCCCC---chh-hHHHHHHHHHHHhhccCcchhhHHhH-------HHH--HHHHHHHccCCHHHHHHHH
Q 045379           76 EVDSNTIWDAFDSLPP---THA-TWDDLINVSVQLRLNKKWDPIVLMSC-------VSI--LLIEAYGQKSLHKKAEFTY  142 (352)
Q Consensus        76 ~g~~~~A~~~~~~~~~---~~~-~~~~l~~~~~~~~~~~~~~~~~~~~~-------~~~--~li~~~~~~g~~~~a~~l~  142 (352)
                      .|+++.|.+.+...+.   ++. .+........+.|+.+.+...+....       .+-  .....+...|+++.|.+.+
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l  176 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHGV  176 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4777777777766542   122 22222333345555555555544433       111  2245677788888888888


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHcCCCHHHHHHHHHHH
Q 045379          143 LELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSA-------VVYNSYIDGLLKGGNPQKAVEIFQRM  215 (352)
Q Consensus       143 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~-------~~~~~li~~~~~~g~~~~a~~~~~~m  215 (352)
                      +++.+..+ -++..+..+...|.+.|+|++|.+++..+.+.+..++.       .+|..++.......+.+...++++.+
T Consensus       177 ~~~~~~~P-~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~l  255 (398)
T PRK10747        177 DKLLEVAP-RHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQ  255 (398)
T ss_pred             HHHHhcCC-CCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhC
Confidence            88877653 25667778888888888888888888888876544322       23334444444444555566666655


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 045379          216 KRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVY  295 (352)
Q Consensus       216 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~  295 (352)
                      .+. .+.+......+...+...|+.++|.+++++..+.  .|+..  -.++.+....++.+++++..++..+.  .|+..
T Consensus       256 p~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~--l~~l~~~l~~~~~~~al~~~e~~lk~--~P~~~  328 (398)
T PRK10747        256 SRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDER--LVLLIPRLKTNNPEQLEKVLRQQIKQ--HGDTP  328 (398)
T ss_pred             CHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHH--HHHHHhhccCCChHHHHHHHHHHHhh--CCCCH
Confidence            432 2345666667777777777777777777766653  34442  11233334457777777777766654  33333


Q ss_pred             H-HHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          296 A-YNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       296 ~-~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      . ...+-..+.          .|+..- ...|+..++..+..++.+.|+.++|.+++.
T Consensus       329 ~l~l~lgrl~~~~~~~~~A~~~le~al-~~~P~~~~~~~La~~~~~~g~~~~A~~~~~  385 (398)
T PRK10747        329 LLWSTLGQLLMKHGEWQEASLAFRAAL-KQRPDAYDYAWLADALDRLHKPEEAAAMRR  385 (398)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHH-hcCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            2 323333332          444441 237899999999999999999999999986

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.29  E-value=3.5e-09  Score=109.60  Aligned_cols=216  Identities=14%  Similarity=0.022  Sum_probs=168.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccC
Q 045379           66 AQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKS  133 (352)
Q Consensus        66 ~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g  133 (352)
                      +..+...+...|++++|+..|++.    |.++..+..+...+...|+.+.+...++...        .+..+...+.+.|
T Consensus       464 ~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~  543 (1157)
T PRK11447        464 LAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSD  543 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCC
Confidence            445677788899999999998865    3456677778888888888777776665543        4444555677889


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHH---------HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC
Q 045379          134 LHKKAEFTYLELLDSRCIPTED---------TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGN  204 (352)
Q Consensus       134 ~~~~a~~l~~~m~~~~~~p~~~---------~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  204 (352)
                      +.++|...++.+......++..         .+..+...+...|+.++|.++++.     .+.+...+..+...+.+.|+
T Consensus       544 ~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~  618 (1157)
T PRK11447        544 RDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGD  618 (1157)
T ss_pred             CHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCC
Confidence            9999999998876433222221         233456778889999999999872     35566778889999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 045379          205 PQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQ  284 (352)
Q Consensus       205 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~  284 (352)
                      +++|...|++..+.. +.+...+..+...|...|++++|++.++...+.. +.+..++..+..++...|++++|.+++++
T Consensus       619 ~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~  696 (1157)
T PRK11447        619 YAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNR  696 (1157)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            999999999998863 4468899999999999999999999999887642 23455677788889999999999999999


Q ss_pred             HHHC
Q 045379          285 LQGA  288 (352)
Q Consensus       285 m~~~  288 (352)
                      +...
T Consensus       697 al~~  700 (1157)
T PRK11447        697 LIPQ  700 (1157)
T ss_pred             Hhhh
Confidence            9865

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

Probab=99.28  E-value=4e-10  Score=103.20  Aligned_cols=196  Identities=16%  Similarity=0.079  Sum_probs=96.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH---HH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIP-TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNS---YI  196 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~---li  196 (352)
                      +|.++.+.|.-+++.+.|++.|++..+.+  | ...+|+.+-.=+.....+|.|...|+....    .+...||+   +-
T Consensus       423 sWca~GNcfSLQkdh~~Aik~f~RAiQld--p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~----~~~rhYnAwYGlG  496 (638)
T KOG1126|consen  423 SWCALGNCFSLQKDHDTAIKCFKRAIQLD--PRFAYAYTLLGHESIATEEFDKAMKSFRKALG----VDPRHYNAWYGLG  496 (638)
T ss_pred             HHHHhcchhhhhhHHHHHHHHHHHhhccC--CccchhhhhcCChhhhhHHHHhHHHHHHhhhc----CCchhhHHHHhhh
Confidence            44444444444455555544444444321  2 333444444444444444444444444322    22233332   23


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 045379          197 DGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCE  276 (352)
Q Consensus       197 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~  276 (352)
                      -.|.++++++.|+-.|++..+.+ +-+.+....+...+-+.|+.++|++++++.....- -|+..--.....+...++++
T Consensus       497 ~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~-kn~l~~~~~~~il~~~~~~~  574 (638)
T KOG1126|consen  497 TVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP-KNPLCKYHRASILFSLGRYV  574 (638)
T ss_pred             hheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC-CCchhHHHHHHHHHhhcchH
Confidence            33444444444544444444432 12333333444444444444455544444433321 12222222233333444444


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHHHHhhccC
Q 045379          277 EAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVELSVKH  349 (352)
Q Consensus       277 ~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~~~~~~~~  349 (352)
                      +|++.+++++                         .-++-+..+|..+...|.+.|+.+.|+.-|.++.+++.
T Consensus       575 eal~~LEeLk-------------------------~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  575 EALQELEELK-------------------------ELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDP  622 (638)
T ss_pred             HHHHHHHHHH-------------------------HhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCC
Confidence            4444444444                         33455778888899999999999999999987766553

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.24  E-value=5e-08  Score=96.77  Aligned_cols=281  Identities=11%  Similarity=0.004  Sum_probs=177.1

Q ss_pred             cCcchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH-------HHHHHHHH
Q 045379           60 PVLSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC-------VSILLIEA  128 (352)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-------~~~~li~~  128 (352)
                      |...+.+..+..++.+.|++++|..+|++.    |.+...+..+...+...++...+...+....       .+..+...
T Consensus        46 ~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~~~~la~~  125 (765)
T PRK10049         46 QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPDKANLLALAYV  125 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            334446788888899999999998888873    3456667777777777777766665555433       26677778


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH------------------------------
Q 045379          129 YGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFR------------------------------  178 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~------------------------------  178 (352)
                      +...|+.++|+..+++..+..+. +...+..+..++...|+.+.|.+.++                              
T Consensus       126 l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~  204 (765)
T PRK10049        126 YKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRS  204 (765)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccC
Confidence            88889999999999888875532 44455555666655566554443333                              


Q ss_pred             ----------------HHHHC-CCCCCHH-HHH----HHHHHHHcCCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHH
Q 045379          179 ----------------EMRKY-GLPPSAV-VYN----SYIDGLLKGGNPQKAVEIFQRMKRDCCQ-PSTETYTLMINLYG  235 (352)
Q Consensus       179 ----------------~m~~~-g~~~~~~-~~~----~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~  235 (352)
                                      .+.+. ...|+.. .+.    ..+..+...|++++|...|+++.+.+-+ |+. .--.+..+|.
T Consensus       205 ~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl  283 (765)
T PRK10049        205 EKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYL  283 (765)
T ss_pred             hhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHH
Confidence                            33322 1112111 111    1123445668888899999888876532 322 2222466888


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-----------CCCCHH---HHH
Q 045379          236 KASKSFMALKLFNEMRSHKCKP---NICTYTALVNAFAREGLCEEAEEIFEQLQGAG-----------IEPDVY---AYN  298 (352)
Q Consensus       236 ~~g~~~~a~~l~~~m~~~g~~p---~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~-----------~~p~~~---~~~  298 (352)
                      ..|++++|+..|+++....-..   .......+..++...|++++|.++++.+.+..           -.|+..   .+.
T Consensus       284 ~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~  363 (765)
T PRK10049        284 KLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQS  363 (765)
T ss_pred             hcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHH
Confidence            8889999999888876542111   13456667777888889999988888887642           112321   111


Q ss_pred             HHH----------HHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          299 ALM----------EAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       299 ~li----------~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .+.          .|..+++++....+.+...+..+...+...|+.++|++.+.
T Consensus       364 ~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~  417 (765)
T PRK10049        364 LLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELK  417 (765)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            122          12225555544445667777788888888888888888775

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.24  E-value=2.2e-09  Score=98.79  Aligned_cols=232  Identities=17%  Similarity=0.075  Sum_probs=167.8

Q ss_pred             ccCcCcCcchhHHHHHHHHHhcCCHHHHHHHhcCCC-----------Cchh-hHHHHHHHHHHHhhccCcchhhHHhH--
Q 045379           55 VDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLP-----------PTHA-TWDDLINVSVQLRLNKKWDPIVLMSC--  120 (352)
Q Consensus        55 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----------~~~~-~~~~l~~~~~~~~~~~~~~~~~~~~~--  120 (352)
                      .+..+|....+...|..+|...|+++.|..++....           +.+. ..+.+...|...++..++..+++...  
T Consensus       191 ~~~~~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i  270 (508)
T KOG1840|consen  191 LGDEDPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTI  270 (508)
T ss_pred             cccCCchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            345566666677789999999999999988886432           1111 12223344444454444444333322  


Q ss_pred             --------------HHHHHHHHHHccCCHHHHHHHHHHHHhC-----CCC-CCHH-HHHHHHHHHHHcCCHHHHHHHHHH
Q 045379          121 --------------VSILLIEAYGQKSLHKKAEFTYLELLDS-----RCI-PTED-TYALLLKAYCMSGLLEKAEAVFRE  179 (352)
Q Consensus       121 --------------~~~~li~~~~~~g~~~~a~~l~~~m~~~-----~~~-p~~~-~~~~li~~~~~~g~~~~a~~~~~~  179 (352)
                                    +++.|...|.+.|++++|...++...+-     |.. |.+. .++.+...|...+++++|..++..
T Consensus       271 ~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~  350 (508)
T KOG1840|consen  271 REEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQK  350 (508)
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence                          8888999999999999998888776541     222 3333 567788889999999999999887


Q ss_pred             HHHC-----C--CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcC-------CCCCHHHHHHHHHHHHhcCCHHHHHH
Q 045379          180 MRKY-----G--LPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDC-------CQPSTETYTLMINLYGKASKSFMALK  245 (352)
Q Consensus       180 m~~~-----g--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-------~~~~~~~~~~li~~~~~~g~~~~a~~  245 (352)
                      ..+.     |  .+....+++.|-..|...|++++|+.+|++..+..       ..-....++.|-..|.+.+++++|.+
T Consensus       351 al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~  430 (508)
T KOG1840|consen  351 ALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQ  430 (508)
T ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHH
Confidence            6542     1  11235789999999999999999999999876531       22234578889999999999999999


Q ss_pred             HHHHHHh----CCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          246 LFNEMRS----HKC--KPNICTYTALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       246 l~~~m~~----~g~--~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                      +|.+-..    .|.  +-...+|..|...|.+.|++++|.++...+.
T Consensus       431 l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  431 LFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            9987543    222  2234689999999999999999999998876

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.20  E-value=6.8e-08  Score=95.83  Aligned_cols=278  Identities=11%  Similarity=-0.041  Sum_probs=181.6

Q ss_pred             cchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHH
Q 045379           62 LSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAY  129 (352)
Q Consensus        62 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~  129 (352)
                      .......++..+...|++++|...+++.    |.+.. |..+..++...++...+...+....        .+..+...+
T Consensus        82 ~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l  160 (765)
T PRK10049         82 NDDYQRGLILTLADAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQAL  160 (765)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3345566777777778888877777654    23455 6666666666666555554444333        334444445


Q ss_pred             HccCCHH----------------------------------------------HHHHHHHHHHhC-CCCCCHH-HH----
Q 045379          130 GQKSLHK----------------------------------------------KAEFTYLELLDS-RCIPTED-TY----  157 (352)
Q Consensus       130 ~~~g~~~----------------------------------------------~a~~l~~~m~~~-~~~p~~~-~~----  157 (352)
                      ...|..+                                              +|++.++.+.+. ...|+.. .+    
T Consensus       161 ~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~  240 (765)
T PRK10049        161 RNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRAR  240 (765)
T ss_pred             HHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHH
Confidence            4444444                                              444455555432 1122221 11    


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC---CHHHHHHHHHH
Q 045379          158 ALLLKAYCMSGLLEKAEAVFREMRKYGLP-PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQP---STETYTLMINL  233 (352)
Q Consensus       158 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~---~~~~~~~li~~  233 (352)
                      ...+.++...|++++|...|+.+.+.+-+ |+. .-..+...|...|++++|+..|+++.+..-..   .......+..+
T Consensus       241 ~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a  319 (765)
T PRK10049        241 IDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYS  319 (765)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHH
Confidence            11134456779999999999999987632 332 22235778999999999999999987653111   13456677778


Q ss_pred             HHhcCCHHHHHHHHHHHHhCC-----------CCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 045379          234 YGKASKSFMALKLFNEMRSHK-----------CKPN---ICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNA  299 (352)
Q Consensus       234 ~~~~g~~~~a~~l~~~m~~~g-----------~~p~---~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~  299 (352)
                      +...|++++|.++++.+....           -.|+   ...+..+...+...|+.++|.++++++.... .-+...+..
T Consensus       320 ~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~  398 (765)
T PRK10049        320 LLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRID  398 (765)
T ss_pred             HHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            899999999999999997652           1133   2345677788999999999999999998652 223445555


Q ss_pred             HHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          300 LMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       300 li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      +...+.          .++....-.+.+...+..+...+.+.|++++|..++.
T Consensus       399 lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~  451 (765)
T PRK10049        399 YASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTD  451 (765)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            554443          5555533334467888888889999999999999985

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.18  E-value=3.7e-08  Score=90.22  Aligned_cols=215  Identities=8%  Similarity=0.009  Sum_probs=161.5

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHH--HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          122 SILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYA--LLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       122 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      |-....+..+.|+++.|.+.+.++.+..  |+.....  .....+...|+++.|...++++.+.. +-+......+...|
T Consensus       121 ~llaA~aA~~~g~~~~A~~~l~~A~~~~--~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~  197 (398)
T PRK10747        121 YLLAAEAAQQRGDEARANQHLERAAELA--DNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAY  197 (398)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            3333455588999999999999998743  5544333  34678889999999999999998875 55678899999999


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPST-------ETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFARE  272 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~-------~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~  272 (352)
                      .+.|+|++|..++..+.+.+..++.       .+|..++.......+.+...++++.+.+. .+.+......+..++...
T Consensus       198 ~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~  276 (398)
T PRK10747        198 IRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIEC  276 (398)
T ss_pred             HHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHC
Confidence            9999999999999999988655322       23344455455556667777777776543 245778889999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHH--------HHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          273 GLCEEAEEIFEQLQGAGIEPDVYAYNALM--------EAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       273 g~~~~a~~l~~~m~~~~~~p~~~~~~~li--------~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      |+.++|.+++.+..+.  .|+........        .+....+...+..+-|...+.++...|.+.|++++|.+.|.
T Consensus       277 g~~~~A~~~L~~~l~~--~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le  352 (398)
T PRK10747        277 DDHDTAQQIILDGLKR--QYDERLVLLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFR  352 (398)
T ss_pred             CCHHHHHHHHHHHHhc--CCCHHHHHHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999999874  45553222111        12225555555556788889999999999999999999996

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

Probab=99.18  E-value=1.7e-10  Score=108.45  Aligned_cols=196  Identities=19%  Similarity=0.172  Sum_probs=129.1

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC------------------------CCCCHHHHHHHH
Q 045379          141 TYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG------------------------LPPSAVVYNSYI  196 (352)
Q Consensus       141 l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g------------------------~~~~~~~~~~li  196 (352)
                      ++..+...|+.|+.+||..+|.-||..|+.+.|- +|..|+-+.                        -.|...||..|+
T Consensus        12 fla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll   90 (1088)
T KOG4318|consen   12 FLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLL   90 (1088)
T ss_pred             HHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHH
Confidence            3445555666666666666666666666666655 555554221                        146789999999


Q ss_pred             HHHHcCCCHHHHHHHHHHHHH-------cCC-----------------CCCHHHHHHHHHHHHhcCCHHHHHHHH-----
Q 045379          197 DGLLKGGNPQKAVEIFQRMKR-------DCC-----------------QPSTETYTLMINLYGKASKSFMALKLF-----  247 (352)
Q Consensus       197 ~~~~~~g~~~~a~~~~~~m~~-------~~~-----------------~~~~~~~~~li~~~~~~g~~~~a~~l~-----  247 (352)
                      .+|...|++..-..+=+.|..       .|+                 -||..   +.+.-....|.|+.+++++     
T Consensus        91 ~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illlv~eglwaqllkll~~~Pv  167 (1088)
T KOG4318|consen   91 KAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLVLEGLWAQLLKLLAKVPV  167 (1088)
T ss_pred             HHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHHHHHHHHHHHHHHhhCCc
Confidence            999999997652222222321       221                 12221   1122222223333333333     


Q ss_pred             -----------HH-------------HHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045379          248 -----------NE-------------MRSHKC-KPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALME  302 (352)
Q Consensus       248 -----------~~-------------m~~~g~-~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~  302 (352)
                                 ++             |.+.++ .|++.+|..++..-..+|+++.|..++.+|.+.|+..+.+-|..++-
T Consensus       168 sa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~  247 (1088)
T KOG4318|consen  168 SAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLL  247 (1088)
T ss_pred             ccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhh
Confidence                       11             111122 48999999999999999999999999999999999999999999884


Q ss_pred             HHH-------HHHHH-hcCCCCCHHHHHHHHHHHHHcCCcchhHHH
Q 045379          303 AYR-------LISRM-HMGCEPDRASYNIMVDAYGRAGLHEGKCSY  340 (352)
Q Consensus       303 a~~-------~~~~m-~~~~~p~~~~~~~li~a~~~~g~~~~A~~~  340 (352)
                      +-.       +.+.| +.|+.|+.+|+..-+-.+..+|....+.+.
T Consensus       248 g~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~  293 (1088)
T KOG4318|consen  248 GINAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEG  293 (1088)
T ss_pred             cCccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccc
Confidence            422       77778 999999999999999998887776655544

>TIGR00540 hemY_coli hemY protein

Probab=99.18  E-value=2.8e-08  Score=91.45  Aligned_cols=263  Identities=12%  Similarity=0.017  Sum_probs=168.8

Q ss_pred             hcCCHHHHHHHhcCCC---Cch-hhHHHHHHHHHHHhhccCcchhhHHhH---------HHHHHHHHHHccCCHHHHHHH
Q 045379           75 REVDSNTIWDAFDSLP---PTH-ATWDDLINVSVQLRLNKKWDPIVLMSC---------VSILLIEAYGQKSLHKKAEFT  141 (352)
Q Consensus        75 ~~g~~~~A~~~~~~~~---~~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~---------~~~~li~~~~~~g~~~~a~~l  141 (352)
                      ..|+++.|.+.+.+..   |++ ..+-....++.+.|+.+.+...+....         .--.....+...|+++.|.+.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~  175 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHG  175 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHH
Confidence            5689999988887665   332 233333445556666666666555432         222246677778999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH---HcCCCHHHHHHHHHHHHHc
Q 045379          142 YLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGL---LKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       142 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~---~~~g~~~~a~~~~~~m~~~  218 (352)
                      ++.+.+..+ -++..+..+...+...|+++.|.+.+..+.+.+..+.......-..++   ...+..+++.+.+..+.+.
T Consensus       176 l~~l~~~~P-~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~  254 (409)
T TIGR00540       176 VDKLLEMAP-RHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKN  254 (409)
T ss_pred             HHHHHHhCC-CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            999988763 256688889999999999999999999999887543322212112222   2222333333444444443


Q ss_pred             C---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH---HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 045379          219 C---CQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICT---YTALVNAFAREGLCEEAEEIFEQLQGAGIEP  292 (352)
Q Consensus       219 ~---~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t---~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p  292 (352)
                      .   .+.+...+..+...+...|+.++|.+++++..+.  .||...   ...........++.+.+.+.+++..+.  .|
T Consensus       255 ~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p  330 (409)
T TIGR00540       255 QPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VD  330 (409)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CC
Confidence            1   1137788888888999999999999999988875  344332   122222233457788888888777654  34


Q ss_pred             CHH--HH-HHHHHHH----------HHHHHH-hcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          293 DVY--AY-NALMEAY----------RLISRM-HMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       293 ~~~--~~-~~li~a~----------~~~~~m-~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      +..  .+ .++-..+          ..|+.. .....|+...+..+...+.+.|+.++|.+++.
T Consensus       331 ~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~  394 (409)
T TIGR00540       331 DKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQ  394 (409)
T ss_pred             CChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            433  22 2222222          255542 33347888889999999999999999999886

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

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.18  E-value=2.2e-08  Score=100.31  Aligned_cols=219  Identities=8%  Similarity=-0.058  Sum_probs=168.6

Q ss_pred             cchhHHHHHHHHHhcCCHHHHHHHhcCCC---CchhhHHHHHHH--HHHHhhccCcchhhHHhH-------HHHHHHHHH
Q 045379           62 LSPTAQQILRFVQREVDSNTIWDAFDSLP---PTHATWDDLINV--SVQLRLNKKWDPIVLMSC-------VSILLIEAY  129 (352)
Q Consensus        62 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~l~~~--~~~~~~~~~~~~~~~~~~-------~~~~li~~~  129 (352)
                      ....+..+...+.. |+.++|...|.+..   |+  .++.+..+  +...|+.+.+...++...       .+..+...+
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd--~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~al  552 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPD--AWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTA  552 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCc--hHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHH
Confidence            44567777777776 78888988665432   44  33433333  345566555555444322       466677888


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHH
Q 045379          130 GQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAV  209 (352)
Q Consensus       130 ~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~  209 (352)
                      .+.|++++|.+.+++..+... ++...+..+.......|++++|...+++..+.  .|+...+..+...+.+.|++++|+
T Consensus       553 l~~Gd~~eA~~~l~qAL~l~P-~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~  629 (987)
T PRK09782        553 QAAGNGAARDRWLQQAEQRGL-GDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAV  629 (987)
T ss_pred             HHCCCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            999999999999999987652 23334444445555679999999999999875  457889999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          210 EIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       210 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      ..|++..+.. +.+...++.+..++...|+.++|+..+++..+.. +-+...+..+..++...|++++|+..+++..+.
T Consensus       630 ~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l  706 (987)
T PRK09782        630 SDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDD  706 (987)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            9999998874 4467788888899999999999999999998763 346678999999999999999999999999865

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.14  E-value=4.4e-07  Score=89.36  Aligned_cols=147  Identities=7%  Similarity=0.043  Sum_probs=105.8

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHH
Q 045379          196 IDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHK-----CKPNICTYTALVNAFA  270 (352)
Q Consensus       196 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g-----~~p~~~t~~~li~~~~  270 (352)
                      +-++...|+..++++.|+.+...+.+....+-..+..+|...+++++|+.+++.+....     ..++......|..+|.
T Consensus       299 l~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~l  378 (822)
T PRK14574        299 LGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLN  378 (822)
T ss_pred             HHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHH
Confidence            34566778888888888888887766556677888899999999999999999886532     1234444678889999


Q ss_pred             hcCCHHHHHHHHHHHHHCC-------------CCCCHHHHHHHH-HHH----------HHHHHHhcCCCCCHHHHHHHHH
Q 045379          271 REGLCEEAEEIFEQLQGAG-------------IEPDVYAYNALM-EAY----------RLISRMHMGCEPDRASYNIMVD  326 (352)
Q Consensus       271 ~~g~~~~a~~l~~~m~~~~-------------~~p~~~~~~~li-~a~----------~~~~~m~~~~~p~~~~~~~li~  326 (352)
                      .++++++|..+++++.+..             ..||-..+..+. ..+          ..++.+....+-|......+.+
T Consensus       379 d~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~  458 (822)
T PRK14574        379 ESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALAS  458 (822)
T ss_pred             hcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            9999999999999988631             123333333222 111          1666665555668888888888


Q ss_pred             HHHHcCCcchhHHHHH
Q 045379          327 AYGRAGLHEGKCSYSL  342 (352)
Q Consensus       327 a~~~~g~~~~A~~~~~  342 (352)
                      .+...|+..+|++.+.
T Consensus       459 v~~~Rg~p~~A~~~~k  474 (822)
T PRK14574        459 IYLARDLPRKAEQELK  474 (822)
T ss_pred             HHHhcCCHHHHHHHHH
Confidence            8888888888888875

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

Probab=99.14  E-value=3.6e-09  Score=96.36  Aligned_cols=162  Identities=18%  Similarity=0.173  Sum_probs=107.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .||.|..++-..|++.+|.+.|.+...... --..+.+.|..++..+|.+++|..+|....+- .+--...+|.|...|-
T Consensus       322 Ay~NlanALkd~G~V~ea~~cYnkaL~l~p-~hadam~NLgni~~E~~~~e~A~~ly~~al~v-~p~~aaa~nNLa~i~k  399 (966)
T KOG4626|consen  322 AYNNLANALKDKGSVTEAVDCYNKALRLCP-NHADAMNNLGNIYREQGKIEEATRLYLKALEV-FPEFAAAHNNLASIYK  399 (966)
T ss_pred             HHhHHHHHHHhccchHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhccchHHHHHHHHHHhh-ChhhhhhhhhHHHHHH
Confidence            677777777777777777777776665321 13446677777777777777777777666553 1222455677777777


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPS-TETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN-ICTYTALVNAFAREGLCEEA  278 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a  278 (352)
                      .+|++++|...|++.+.-  .|+ ..+++.+-+.|-..|+.+.|.+.+.+....  .|. ...++.|.+.|-.+|++.+|
T Consensus       400 qqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~--nPt~AeAhsNLasi~kDsGni~~A  475 (966)
T KOG4626|consen  400 QQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI--NPTFAEAHSNLASIYKDSGNIPEA  475 (966)
T ss_pred             hcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc--CcHHHHHHhhHHHHhhccCCcHHH
Confidence            777777777777776653  444 356777777777777777777777766654  343 34577777777777777777


Q ss_pred             HHHHHHHHHC
Q 045379          279 EEIFEQLQGA  288 (352)
Q Consensus       279 ~~l~~~m~~~  288 (352)
                      .+-|++..+.
T Consensus       476 I~sY~~aLkl  485 (966)
T KOG4626|consen  476 IQSYRTALKL  485 (966)
T ss_pred             HHHHHHHHcc
Confidence            7777776653

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.11  E-value=6.3e-08  Score=89.32  Aligned_cols=222  Identities=18%  Similarity=0.140  Sum_probs=161.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC-----CC-CCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHHHC-------CCC
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDS-----RC-IPTEDT-YALLLKAYCMSGLLEKAEAVFREMRKY-------GLP  186 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~-----~~-~p~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~~-------g~~  186 (352)
                      +...|...|...|+++.|..+++...+.     |. .|...+ .+.+...|...+++++|..+|+++...       ..+
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~  280 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP  280 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            6666999999999999999999988764     21 244443 344778899999999999999998652       233


Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHH---c--CC-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCC
Q 045379          187 PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKR---D--CC-QPST-ETYTLMINLYGKASKSFMALKLFNEMRSH---KCK  256 (352)
Q Consensus       187 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~--~~-~~~~-~~~~~li~~~~~~g~~~~a~~l~~~m~~~---g~~  256 (352)
                      -...+++.|..+|.+.|++++|...+++..+   .  |. .|.+ ..++.+...|+..+++++|..+++...+.   -..
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g  360 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPG  360 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcc
Confidence            3467788888899999999999888877543   1  11 2222 34677888999999999999999876442   111


Q ss_pred             CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC--CCC-HHHHHHHHHHHH-----------------HHH
Q 045379          257 PN----ICTYTALVNAFAREGLCEEAEEIFEQLQGA----GI--EPD-VYAYNALMEAYR-----------------LIS  308 (352)
Q Consensus       257 p~----~~t~~~li~~~~~~g~~~~a~~l~~~m~~~----~~--~p~-~~~~~~li~a~~-----------------~~~  308 (352)
                      ++    ..+++.|-..|-+.|++++|.++|++....    +-  .+. ...++.+-.+|.                 +..
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~  440 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMK  440 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHH
Confidence            22    347999999999999999999999988643    12  222 233444444443                 221


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          309 RMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       309 ~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ....+.+-...+|..|..+|.+.|++|+|.++..
T Consensus       441 ~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~  474 (508)
T KOG1840|consen  441 LCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEE  474 (508)
T ss_pred             HhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHH
Confidence            1133444567889999999999999999999875

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

Probab=99.11  E-value=9.6e-08  Score=80.79  Aligned_cols=249  Identities=14%  Similarity=0.104  Sum_probs=173.1

Q ss_pred             cCcchhHHHHHHHHHhcCCHHHHHHHhcCCCC-chhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHH
Q 045379           60 PVLSPTAQQILRFVQREVDSNTIWDAFDSLPP-THATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKA  138 (352)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  138 (352)
                      |.+....-+|-+.|.+.|.+++|+++-+.+.. ...|++-=+.                   ..-.|..=|...|-++.|
T Consensus        66 ~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~l-------------------Al~qL~~Dym~aGl~DRA  126 (389)
T COG2956          66 PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLL-------------------ALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHH-------------------HHHHHHHHHHHhhhhhHH
Confidence            34444555666666666666666666665531 1123322111                   334455668888999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHH
Q 045379          139 EFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS----AVVYNSYIDGLLKGGNPQKAVEIFQR  214 (352)
Q Consensus       139 ~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~  214 (352)
                      ..+|..+.+.+. --.....-|+..|-...+|+.|.++-+++.+.+-.+.    ..-|-.+...+....+.+.|..++++
T Consensus       127 E~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         127 EDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            999999887543 2455788889999999999999999998887765443    34466777888888899999999998


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 045379          215 MKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDV  294 (352)
Q Consensus       215 m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~  294 (352)
                      ..+.+ +-++..--.+-..+...|+++.|.+.++...+.+...-..+...|..+|.+.|+.++....+.++.+....++.
T Consensus       206 Alqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~  284 (389)
T COG2956         206 ALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADA  284 (389)
T ss_pred             HHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccH
Confidence            87764 22455555677888899999999999999988866666677888999999999999999999988876444443


Q ss_pred             HH--HHHHHHHHH-------HHHHHhcCCCCCHHHHHHHHHHHHHc
Q 045379          295 YA--YNALMEAYR-------LISRMHMGCEPDRASYNIMVDAYGRA  331 (352)
Q Consensus       295 ~~--~~~li~a~~-------~~~~m~~~~~p~~~~~~~li~a~~~~  331 (352)
                      ..  +..+..--+       +.+++  .-+|+...+..||+.-...
T Consensus       285 ~l~l~~lie~~~G~~~Aq~~l~~Ql--~r~Pt~~gf~rl~~~~l~d  328 (389)
T COG2956         285 ELMLADLIELQEGIDAAQAYLTRQL--RRKPTMRGFHRLMDYHLAD  328 (389)
T ss_pred             HHHHHHHHHHhhChHHHHHHHHHHH--hhCCcHHHHHHHHHhhhcc
Confidence            32  222211111       33333  2378999999998875443

>PRK12370 invasion protein regulator; Provisional

Probab=99.08  E-value=9.6e-08  Score=91.32  Aligned_cols=152  Identities=15%  Similarity=0.094  Sum_probs=109.6

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 045379          132 KSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEI  211 (352)
Q Consensus       132 ~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  211 (352)
                      .+++++|...+++..+.+. -+...+..+...+...|++++|...+++..+.+ +.+...+..+...+...|++++|...
T Consensus       317 ~~~~~~A~~~~~~Al~ldP-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~  394 (553)
T PRK12370        317 QNAMIKAKEHAIKATELDH-NNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQT  394 (553)
T ss_pred             chHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            3557888888888887553 256677777778888888888888888887764 44566777788888888888888888


Q ss_pred             HHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          212 FQRMKRDCCQPS-TETYTLMINLYGKASKSFMALKLFNEMRSHKCKP-NICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       212 ~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      +++..+..  |+ ...+..++..+...|++++|+..+++..... .| +...+..+..++...|+.++|.+.+.++...
T Consensus       395 ~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~  470 (553)
T PRK12370        395 INECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ  470 (553)
T ss_pred             HHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc
Confidence            88887763  33 2333344445666788888888888876543 23 3445666777788888888888888876544

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

Probab=99.07  E-value=2.9e-07  Score=78.00  Aligned_cols=238  Identities=16%  Similarity=0.132  Sum_probs=172.5

Q ss_pred             CCHHHHHHHhcCCC-CchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC--
Q 045379           77 VDSNTIWDAFDSLP-PTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT--  153 (352)
Q Consensus        77 g~~~~A~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~--  153 (352)
                      ...++|.+.|-.|. .|+.|+.                       +--+|.+-|.+.|..+.|+++...+.++---+.  
T Consensus        49 ~Q~dKAvdlF~e~l~~d~~t~e-----------------------~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~q  105 (389)
T COG2956          49 NQPDKAVDLFLEMLQEDPETFE-----------------------AHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQ  105 (389)
T ss_pred             cCcchHHHHHHHHHhcCchhhH-----------------------HHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHH
Confidence            45677887777665 4555554                       556677889999999999999999987621111  


Q ss_pred             -HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC----HHHHH
Q 045379          154 -EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPS----TETYT  228 (352)
Q Consensus       154 -~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~  228 (352)
                       ....-.|..-|...|-+|.|+.+|..+.+.+. .-......|+..|-...+|++|.++-+++.+.+-.+.    ..-|.
T Consensus       106 r~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyC  184 (389)
T COG2956         106 RLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYC  184 (389)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHH
Confidence             12455677788999999999999999988653 3446788899999999999999999999988654443    23567


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH---
Q 045379          229 LMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR---  305 (352)
Q Consensus       229 ~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~---  305 (352)
                      -|...+....+.+.|..++.+..+.. +-.+..--.+-+.....|+++.|.+.++...+.+..--..+...|..+|.   
T Consensus       185 ELAq~~~~~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg  263 (389)
T COG2956         185 ELAQQALASSDVDRARELLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLG  263 (389)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhC
Confidence            78888888899999999999988763 22233344556788899999999999999998876666778888888887   


Q ss_pred             -------HH-HHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHH
Q 045379          306 -------LI-SRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYS  341 (352)
Q Consensus       306 -------~~-~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~  341 (352)
                             .+ +.|+.  .++...-..+-+.-....-.+.|..++
T Consensus       264 ~~~~~~~fL~~~~~~--~~g~~~~l~l~~lie~~~G~~~Aq~~l  305 (389)
T COG2956         264 KPAEGLNFLRRAMET--NTGADAELMLADLIELQEGIDAAQAYL  305 (389)
T ss_pred             CHHHHHHHHHHHHHc--cCCccHHHHHHHHHHHhhChHHHHHHH
Confidence                   22 23322  334444444444434444455665554

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

Probab=99.07  E-value=3.2e-07  Score=79.79  Aligned_cols=239  Identities=13%  Similarity=0.090  Sum_probs=147.5

Q ss_pred             cCCHHHHHHHhcCCC----CchhhHHHHHHHHHHHhhccCcchhhHHhH---------HHHHHHHHHHccCCHHHHHHHH
Q 045379           76 EVDSNTIWDAFDSLP----PTHATWDDLINVSVQLRLNKKWDPIVLMSC---------VSILLIEAYGQKSLHKKAEFTY  142 (352)
Q Consensus        76 ~g~~~~A~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---------~~~~li~~~~~~g~~~~a~~l~  142 (352)
                      .|++.+|++...+-.    .....|..-..+..++|+.+.++..+....         ..-+........|+++.|..-.
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            589999988886643    234455555666667777776666654433         5666667777888888888888


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHcCCCHHHHHHHHHHH
Q 045379          143 LELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSA-------VVYNSYIDGLLKGGNPQKAVEIFQRM  215 (352)
Q Consensus       143 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~-------~~~~~li~~~~~~g~~~~a~~~~~~m  215 (352)
                      +++.+.+.. .+........+|.+.|++..+..+...|.+.|.-.+.       .+|+.++.=....+..+.-...+++.
T Consensus       177 ~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         177 DQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            888876653 5667788888888888888888888888877654332       33444444333333333322333332


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC------------------------------HHHHHHH
Q 045379          216 KRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN------------------------------ICTYTAL  265 (352)
Q Consensus       216 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~------------------------------~~t~~~l  265 (352)
                      ..+ .+-++..-..++.-+.+.|+.++|.++.++-.+++..|+                              +..+.+|
T Consensus       256 pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tL  334 (400)
T COG3071         256 PRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTL  334 (400)
T ss_pred             cHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHH
Confidence            221 122233333444444555555555555554444433332                              2344555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          266 VNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       266 i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      -..|.+++.|.+|...|+...+                          ..|+..+|+.+.+++.+.|+.++|.+.+.
T Consensus       335 G~L~~k~~~w~kA~~~leaAl~--------------------------~~~s~~~~~~la~~~~~~g~~~~A~~~r~  385 (400)
T COG3071         335 GRLALKNKLWGKASEALEAALK--------------------------LRPSASDYAELADALDQLGEPEEAEQVRR  385 (400)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHh--------------------------cCCChhhHHHHHHHHHHcCChHHHHHHHH
Confidence            5555555555555555554433                          37899999999999999999999998875

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.05  E-value=6.7e-07  Score=88.09  Aligned_cols=272  Identities=13%  Similarity=0.072  Sum_probs=190.7

Q ss_pred             HHHHHhcCCHHHHHHHhcCCC---Cch-hhHHHHHHHHHHHhhccCcchhhHHhH------HHHHH--HHHHHccCCHHH
Q 045379           70 LRFVQREVDSNTIWDAFDSLP---PTH-ATWDDLINVSVQLRLNKKWDPIVLMSC------VSILL--IEAYGQKSLHKK  137 (352)
Q Consensus        70 ~~~~~~~g~~~~A~~~~~~~~---~~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~------~~~~l--i~~~~~~g~~~~  137 (352)
                      +-...+.|+++.|+..|++..   |+. .....++..+...|+...+....+.+.      .+..+  ...|...|++++
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~  120 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQ  120 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            334468999999999998765   432 122377777777777766666555543      33333  568888999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 045379          138 AEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKR  217 (352)
Q Consensus       138 a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  217 (352)
                      |.++|+++.+.... ++..+..++..+...++.++|++.++.+.+.  .|+...+-.++..+...++..+|++.++++.+
T Consensus       121 Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~  197 (822)
T PRK14574        121 ALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVR  197 (822)
T ss_pred             HHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            99999999987643 4667778889999999999999999999876  45556665555555556777679999999998


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH------------------------------------------------
Q 045379          218 DCCQPSTETYTLMINLYGKASKSFMALKLFNE------------------------------------------------  249 (352)
Q Consensus       218 ~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~------------------------------------------------  249 (352)
                      .. +-+...+..++.+..+.|-...|.++..+                                                
T Consensus       198 ~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~  276 (822)
T PRK14574        198 LA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQN  276 (822)
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHH
Confidence            73 33566666666666666655554444432                                                


Q ss_pred             HHh-CCCCCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHH-h-
Q 045379          250 MRS-HKCKPNI-----CTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR----------LISRM-H-  311 (352)
Q Consensus       250 m~~-~g~~p~~-----~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m-~-  311 (352)
                      +.. .+-.|..     ...--.+-++...|++.++.+.|+.|...+......+-.++.++|.          +++.+ . 
T Consensus       277 l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~  356 (822)
T PRK14574        277 LLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYS  356 (822)
T ss_pred             HHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhc
Confidence            221 1111321     1122345567788999999999999998887656667788888877          77776 2 


Q ss_pred             cC----CCCCHHHHHHHHHHHHHcCCcchhHHHHHHHh
Q 045379          312 MG----CEPDRASYNIMVDAYGRAGLHEGKCSYSLVEL  345 (352)
Q Consensus       312 ~~----~~p~~~~~~~li~a~~~~g~~~~A~~~~~~~~  345 (352)
                      .+    ..++......|.-+|..+|++++|..++.-+.
T Consensus       357 ~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~  394 (822)
T PRK14574        357 DGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYS  394 (822)
T ss_pred             cccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            21    23355556889999999999999999987443

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

Probab=99.03  E-value=9.7e-08  Score=84.40  Aligned_cols=279  Identities=13%  Similarity=0.048  Sum_probs=202.8

Q ss_pred             ccCcCcCcchhHHHHHHHHHhcCCHHHHHHHhcCCC-------CchhhHHHHHHHHHHHhhcc-CcchhhHHhH----HH
Q 045379           55 VDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLP-------PTHATWDDLINVSVQLRLNK-KWDPIVLMSC----VS  122 (352)
Q Consensus        55 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~l~~~~~~~~~~~-~~~~~~~~~~----~~  122 (352)
                      .+-.+|...-+-+..........|++.|+.+|+.+.       .|..+|..++-+-....+.. .+..+...-.    |.
T Consensus       254 ~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKyR~ETC  333 (559)
T KOG1155|consen  254 SSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKYRPETC  333 (559)
T ss_pred             HhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccCCccce
Confidence            344466555566777778888999999999999874       36667776665432211110 1111111111    88


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKG  202 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  202 (352)
                      .++.+.|+-.++.++|...|+...+-+.. ....|+.+-+-|....+...|.+-++...+-. +-|-..|-.|-.+|.-.
T Consensus       334 CiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim  411 (559)
T KOG1155|consen  334 CIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIM  411 (559)
T ss_pred             eeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHh
Confidence            88899999999999999999999986542 56688889999999999999999999998873 56778899999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 045379          203 GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIF  282 (352)
Q Consensus       203 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~  282 (352)
                      +.+.-|+-.|++..+-. +-|...|.+|-.+|.+.++.++|++.|......|- .+...+..|...|-+.++.++|.+.|
T Consensus       412 ~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~LakLye~l~d~~eAa~~y  489 (559)
T KOG1155|consen  412 KMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKLYEELKDLNEAAQYY  489 (559)
T ss_pred             cchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHHHHHHHhHHHHHHHH
Confidence            99999999999988753 45889999999999999999999999999987763 36688999999999999999999999


Q ss_pred             HHHHHC----CCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          283 EQLQGA----GIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       283 ~~m~~~----~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .+-.+.    |. .+..|..+.+---..|..|.  --.-...|.+....+  .-..+||..++.
T Consensus       490 ek~v~~~~~eg~-~~~~t~ka~~fLA~~f~k~~--~~~~As~Ya~~~~~~--~~e~eeak~LlR  548 (559)
T KOG1155|consen  490 EKYVEVSELEGE-IDDETIKARLFLAEYFKKMK--DFDEASYYATLVLKG--ETECEEAKALLR  548 (559)
T ss_pred             HHHHHHHHhhcc-cchHHHHHHHHHHHHHHhhc--chHHHHHHHHHHhcC--CchHHHHHHHHH
Confidence            887652    32 33344443333222333331  011233334433333  556677777764

>TIGR00540 hemY_coli hemY protein

Probab=99.02  E-value=2.7e-07  Score=84.93  Aligned_cols=217  Identities=12%  Similarity=-0.001  Sum_probs=144.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 045379          122 SILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK  201 (352)
Q Consensus       122 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  201 (352)
                      +-....+..+.|+++.|.+.+.+..+....+....-......+...|+++.|...++.+.+.. |-+..+...+...|..
T Consensus       121 ~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~  199 (409)
T TIGR00540       121 LIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIR  199 (409)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            444456677889999999999888764432332344445777788899999999999988875 4566788888889999


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCCHHHH-HHHHHHH---HhcCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCC
Q 045379          202 GGNPQKAVEIFQRMKRDCCQPSTETY-TLMINLY---GKASKSFMALKLFNEMRSHK---CKPNICTYTALVNAFAREGL  274 (352)
Q Consensus       202 ~g~~~~a~~~~~~m~~~~~~~~~~~~-~~li~~~---~~~g~~~~a~~l~~~m~~~g---~~p~~~t~~~li~~~~~~g~  274 (352)
                      .|++++|.+.+..+.+.++.+ ...+ ..-..++   ...+..+++.+.+..+.+..   .+.+...+..+...+...|+
T Consensus       200 ~~d~~~a~~~l~~l~k~~~~~-~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~  278 (409)
T TIGR00540       200 SGAWQALDDIIDNMAKAGLFD-DEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDD  278 (409)
T ss_pred             HhhHHHHHHHHHHHHHcCCCC-HHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCC
Confidence            999999999999998886543 3323 1111222   22233333333444443321   12377888899999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHH-----HHHHHHH--------HHHHHHHHhcCCCCCH--HHHHHHHHHHHHcCCcchhHH
Q 045379          275 CEEAEEIFEQLQGAGIEPDVY-----AYNALME--------AYRLISRMHMGCEPDR--ASYNIMVDAYGRAGLHEGKCS  339 (352)
Q Consensus       275 ~~~a~~l~~~m~~~~~~p~~~-----~~~~li~--------a~~~~~~m~~~~~p~~--~~~~~li~a~~~~g~~~~A~~  339 (352)
                      .++|.+++++..+.  .||..     .+.....        +...++......+-|.  ....++...|.+.|++++|.+
T Consensus       279 ~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~  356 (409)
T TIGR00540       279 HDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAAD  356 (409)
T ss_pred             hHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHH
Confidence            99999999999876  34433     1211111        1113333333333344  677899999999999999999


Q ss_pred             HHH
Q 045379          340 YSL  342 (352)
Q Consensus       340 ~~~  342 (352)
                      .|.
T Consensus       357 ~le  359 (409)
T TIGR00540       357 AFK  359 (409)
T ss_pred             HHH
Confidence            987

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.

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

Probab=99.00  E-value=4.7e-08  Score=82.76  Aligned_cols=217  Identities=15%  Similarity=0.077  Sum_probs=167.9

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKG  202 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  202 (352)
                      +-+..+|.+.|.+.+|.+-++...++.  |-+.||..|-..|.+..++..|+.++.+-.+. .+-++....-+.+.+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~--~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQF--PHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcC--CchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            567888999999999999998888754  67778888999999999999999999887765 334444445677788888


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 045379          203 GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIF  282 (352)
Q Consensus       203 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~  282 (352)
                      ++.++|.++++...+.. +.++...-.+...|.-.++++-|+..++++.+.|+. +...|+.+--+|.-.++++-++.-|
T Consensus       304 ~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHH
Confidence            99999999999988763 456777888888899999999999999999998864 7778999999999999999999999


Q ss_pred             HHHHHCCCCCCHH---HHHH---------HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHHHH
Q 045379          283 EQLQGAGIEPDVY---AYNA---------LMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVE  344 (352)
Q Consensus       283 ~~m~~~~~~p~~~---~~~~---------li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~~~  344 (352)
                      .+....--.|+..   =||.         +.-|-..|+.-...-.-+.+.++.|.-.-.+.|++++|..++.-.
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A  455 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAA  455 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHh
Confidence            8887543333321   1221         111112344333334557889999999999999999999999733

>PRK12370 invasion protein regulator; Provisional

Probab=98.96  E-value=4.8e-07  Score=86.55  Aligned_cols=206  Identities=12%  Similarity=-0.015  Sum_probs=147.1

Q ss_pred             CCHHHHHHHhcCCC----CchhhHHHHHHHHHHHhhccC------cchhhHHhH-----------HHHHHHHHHHccCCH
Q 045379           77 VDSNTIWDAFDSLP----PTHATWDDLINVSVQLRLNKK------WDPIVLMSC-----------VSILLIEAYGQKSLH  135 (352)
Q Consensus        77 g~~~~A~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~------~~~~~~~~~-----------~~~~li~~~~~~g~~  135 (352)
                      +++++|...|++..    .+...|..+..++...+..+.      ..++.....           +|..+...+...|++
T Consensus       275 ~~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~  354 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSEY  354 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCH
Confidence            34567777776542    355667666666554443221      122222222           788888899999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 045379          136 KKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRM  215 (352)
Q Consensus       136 ~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  215 (352)
                      ++|...|++..+.+. .+...+..+..++...|++++|...+++..+..-. +...+..++..+...|++++|...+++.
T Consensus       355 ~~A~~~~~~Al~l~P-~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~  432 (553)
T PRK12370        355 IVGSLLFKQANLLSP-ISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDEL  432 (553)
T ss_pred             HHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHH
Confidence            999999999998653 24668888899999999999999999999886422 2233334455567789999999999998


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          216 KRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNIC-TYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       216 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~-t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      .+...+-+...+..+..++...|+.++|...+.++...  .|+.. ..+.+...|...|  ++|...++.+.+.
T Consensus       433 l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        433 RSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHH
Confidence            87642335566788888999999999999999987654  34433 4555556677777  5888888877653

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.95  E-value=1.4e-06  Score=76.46  Aligned_cols=206  Identities=17%  Similarity=0.067  Sum_probs=101.4

Q ss_pred             CHHHHHHHHHHHHhCC-CCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHH
Q 045379          134 LHKKAEFTYLELLDSR-CIPT--EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVE  210 (352)
Q Consensus       134 ~~~~a~~l~~~m~~~~-~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  210 (352)
                      ..+.++.-+.++.... ..|+  ...|..+...+.+.|++++|...|++..+.. +.+...|+.+...+...|++++|..
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            3444555554554321 1111  2345555555555566666666655555542 2344555555556666666666666


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 045379          211 IFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGI  290 (352)
Q Consensus       211 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~  290 (352)
                      .|++..+.. +-+..+|..+..++...|++++|.+.|+...+.  .|+..........+...++.++|...+.+..... 
T Consensus       120 ~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-  195 (296)
T PRK11189        120 AFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-  195 (296)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-
Confidence            666555432 113445555555555566666666666555543  2222111111112233445566666554433221 


Q ss_pred             CCCHHHHHHHHHHHH-------HHHHHhcCC-------CCCHHHHHHHHHHHHHcCCcchhHHHHHHHh
Q 045379          291 EPDVYAYNALMEAYR-------LISRMHMGC-------EPDRASYNIMVDAYGRAGLHEGKCSYSLVEL  345 (352)
Q Consensus       291 ~p~~~~~~~li~a~~-------~~~~m~~~~-------~p~~~~~~~li~a~~~~g~~~~A~~~~~~~~  345 (352)
                      .|+...+ .+...+.       .++.+..++       +.....|..+...+.+.|++++|...|....
T Consensus       196 ~~~~~~~-~~~~~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al  263 (296)
T PRK11189        196 DKEQWGW-NIVEFYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLAL  263 (296)
T ss_pred             CccccHH-HHHHHHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            1211111 1111100       222221111       1234678999999999999999999997443

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

Probab=98.92  E-value=4.3e-07  Score=86.21  Aligned_cols=201  Identities=12%  Similarity=0.101  Sum_probs=124.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC-----CchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP-----PTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAE  139 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  139 (352)
                      +|.+++.-|+..|+++.|- +|.-|.     -+...|+.++.+....++.+..++-..  ++|..|..+|...||...-.
T Consensus        27 tyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~a--Dtyt~Ll~ayr~hGDli~fe  103 (1088)
T KOG4318|consen   27 TYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLA--DTYTNLLKAYRIHGDLILFE  103 (1088)
T ss_pred             hHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCch--hHHHHHHHHHHhccchHHHH
Confidence            7899999999999999998 887665     356778888888777777777664433  39999999999999876522


Q ss_pred             HHHHHHHh-------CCC-----------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH---------------
Q 045379          140 FTYLELLD-------SRC-----------------IPTEDTYALLLKAYCMSGLLEKAEAVFREM---------------  180 (352)
Q Consensus       140 ~l~~~m~~-------~~~-----------------~p~~~~~~~li~~~~~~g~~~~a~~~~~~m---------------  180 (352)
                      .+=+.|..       .|+                 .||..+   ++....-.|.|+.+.+++..+               
T Consensus       104 ~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n---~illlv~eglwaqllkll~~~Pvsa~~~p~~vfLrq  180 (1088)
T KOG4318|consen  104 VVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN---AILLLVLEGLWAQLLKLLAKVPVSAWNAPFQVFLRQ  180 (1088)
T ss_pred             HHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH---HHHHHHHHHHHHHHHHHHhhCCcccccchHHHHHHH
Confidence            21111211       121                 122221   111122233344443333221               


Q ss_pred             -H-------------HCCC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 045379          181 -R-------------KYGL-PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALK  245 (352)
Q Consensus       181 -~-------------~~g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  245 (352)
                       .             +.+. .|+..+|..++++-..+|+.+.|..++.+|++.|++.+..-|..|+-+   .++..-++.
T Consensus       181 nv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~  257 (1088)
T KOG4318|consen  181 NVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEF  257 (1088)
T ss_pred             hccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHH
Confidence             1             1111 356666666666666667777777777777777766666666666555   566666666


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 045379          246 LFNEMRSHKCKPNICTYTALVNAFAREGL  274 (352)
Q Consensus       246 l~~~m~~~g~~p~~~t~~~li~~~~~~g~  274 (352)
                      ++..|.+.|+.|+..|+..-+-.+..+|+
T Consensus       258 vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  258 VLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            66666666777777666666665555444

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

Probab=98.85  E-value=1.1e-07  Score=80.66  Aligned_cols=219  Identities=14%  Similarity=0.037  Sum_probs=156.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHhcCCC---CchhhHHHHHHHHHHHhhccCcchhhHHhH-------HH-HHHHHHHHccCCH
Q 045379           67 QQILRFVQREVDSNTIWDAFDSLP---PTHATWDDLINVSVQLRLNKKWDPIVLMSC-------VS-ILLIEAYGQKSLH  135 (352)
Q Consensus        67 ~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-------~~-~~li~~~~~~g~~  135 (352)
                      +.+...|-+.|.+.+|.+-|+...   |.+.||-.+-++|.+..+...+..++..-.       || .-+...+-..++.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~  306 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQ  306 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhH
Confidence            777888888888888888887543   677788777777777666655444332211       22 2344556667788


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 045379          136 KKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRM  215 (352)
Q Consensus       136 ~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  215 (352)
                      ++|.++|+...+... .++.+..++...|.-.++++.|+..|+++.+.|+ .+...|+.+--+|.-.+++|-++.-|++.
T Consensus       307 ~~a~~lYk~vlk~~~-~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~RA  384 (478)
T KOG1129|consen  307 EDALQLYKLVLKLHP-INVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRA  384 (478)
T ss_pred             HHHHHHHHHHHhcCC-ccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHHHH
Confidence            888888888776542 3566777777778888888888888888888876 45677777777777888888888888877


Q ss_pred             HHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          216 KRDCCQPS--TETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       216 ~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      ...-..|+  ..+|-.|-...+..|++..|.+.|+-..... .-+...+|.|.-.-.+.|++++|..+++.....
T Consensus       385 lstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  385 LSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            66443343  3457777777777888888888888776553 335667888888788889999999888887654

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

Probab=98.84  E-value=2.6e-07  Score=81.60  Aligned_cols=211  Identities=13%  Similarity=0.122  Sum_probs=132.5

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH------------------------------------HHcCCH
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAY------------------------------------CMSGLL  170 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~------------------------------------~~~g~~  170 (352)
                      ..+.++|+++.|.++++-+.+..-+.-...-+.|-..+                                    ...|++
T Consensus       427 ~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~  506 (840)
T KOG2003|consen  427 GELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDL  506 (840)
T ss_pred             HHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcH
Confidence            34778999999999998877654322111111111111                                    234678


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          171 EKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       171 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      +.|.+.|++.....-.-+...||.=+ .+-..|++++|+..|-++..- +.-+..+.-.+.+.|-...+...|++++.+.
T Consensus       507 dka~~~ykeal~ndasc~ealfnigl-t~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~  584 (840)
T KOG2003|consen  507 DKAAEFYKEALNNDASCTEALFNIGL-TAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQA  584 (840)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHh
Confidence            88888888877655433444455433 356788899999888776542 1225666677777888888888888887766


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHH
Q 045379          251 RSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR----------LISRMHMGCEPDRAS  320 (352)
Q Consensus       251 ~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~  320 (352)
                      ... ++-|+...+-|...|-+.|+-..|.+.+-+--+ -+..+..|...|-.-|.          +|++ ..-+.|+..-
T Consensus       585 ~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ek-aaliqp~~~k  661 (840)
T KOG2003|consen  585 NSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEK-AALIQPNQSK  661 (840)
T ss_pred             ccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHH-HHhcCccHHH
Confidence            543 455667777788888888887777776644322 13345555555444333          2222 2345788888


Q ss_pred             HHHHHHH-HHHcCCcchhHHHHH
Q 045379          321 YNIMVDA-YGRAGLHEGKCSYSL  342 (352)
Q Consensus       321 ~~~li~a-~~~~g~~~~A~~~~~  342 (352)
                      |..+|.. +.+.|++.+|++++.
T Consensus       662 wqlmiasc~rrsgnyqka~d~yk  684 (840)
T KOG2003|consen  662 WQLMIASCFRRSGNYQKAFDLYK  684 (840)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHH
Confidence            8777664 456788888888775

>PF12854 PPR_1: PPR repeat

Probab=98.84  E-value=5e-09  Score=59.21  Aligned_cols=32  Identities=31%  Similarity=0.872  Sum_probs=16.1

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          254 KCKPNICTYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       254 g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      |++||..||++||++|++.|++++|.++|++|
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            44455555555555555555555555555444

>PF12854 PPR_1: PPR repeat

Probab=98.84  E-value=4.8e-09  Score=59.25  Aligned_cols=32  Identities=41%  Similarity=0.679  Sum_probs=17.6

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          219 CCQPSTETYTLMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       219 ~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      |+.||..|||.||.+|++.|++++|.++|++|
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            44555555555555555555555555555554

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

Probab=98.84  E-value=2.2e-06  Score=74.69  Aligned_cols=212  Identities=16%  Similarity=0.072  Sum_probs=125.6

Q ss_pred             HHHHHhcCCHHHHHHHhcCCC-----CchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCCHH
Q 045379           70 LRFVQREVDSNTIWDAFDSLP-----PTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSLHK  136 (352)
Q Consensus        70 ~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~~  136 (352)
                      +.+....||.+.+-..+.+..     ++....-+........++...+..-+....        +-.....+|.+.|++.
T Consensus       125 A~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~  204 (400)
T COG3071         125 AEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMTPRHPEVLRLALRAYIRLGAWQ  204 (400)
T ss_pred             HHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhccHH
Confidence            344556677777766665442     122233333333333333332222222111        5566667777777777


Q ss_pred             HHHHHHHHHHhCCCCCCH-------HHHHHHH----------------------------------HHHHHcCCHHHHHH
Q 045379          137 KAEFTYLELLDSRCIPTE-------DTYALLL----------------------------------KAYCMSGLLEKAEA  175 (352)
Q Consensus       137 ~a~~l~~~m~~~~~~p~~-------~~~~~li----------------------------------~~~~~~g~~~~a~~  175 (352)
                      ++..++..|.+.|.--++       .+|..++                                  .-+.+.|+.++|.+
T Consensus       205 ~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~  284 (400)
T COG3071         205 ALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQE  284 (400)
T ss_pred             HHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHH
Confidence            777777777666543222       1344444                                  44445555555555


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 045379          176 VFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKC  255 (352)
Q Consensus       176 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~  255 (352)
                      +..+..+++..|+...+    -.+.+-++.+.-.+..++-.+. ++-++-.+.+|-.-|.+++.|.+|...|+...+.  
T Consensus       285 ~i~~~Lk~~~D~~L~~~----~~~l~~~d~~~l~k~~e~~l~~-h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--  357 (400)
T COG3071         285 IIEDALKRQWDPRLCRL----IPRLRPGDPEPLIKAAEKWLKQ-HPEDPLLLSTLGRLALKNKLWGKASEALEAALKL--  357 (400)
T ss_pred             HHHHHHHhccChhHHHH----HhhcCCCCchHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--
Confidence            55555555444431111    1223334444444443332221 2334466788899999999999999999977665  


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          256 KPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       256 ~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      .|+..+|+.+..++.+.|+.++|.+++++....
T Consensus       358 ~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~  390 (400)
T COG3071         358 RPSASDYAELADALDQLGEPEEAEQVRREALLL  390 (400)
T ss_pred             CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            799999999999999999999999999987643

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

Probab=98.79  E-value=6.6e-06  Score=66.75  Aligned_cols=178  Identities=17%  Similarity=0.071  Sum_probs=146.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      +..-|.-+|.+.|++..|.+-+++.++.... +..+|..+...|.+.|+.+.|.+-|++..+.. +-+..+.|..-..+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            6667788899999999999999999986632 55699999999999999999999999988763 446678888888999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQP-STETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  279 (352)
                      .+|++++|.+.|++......-+ -..+|.++.-+..+.|+.+.|...|++-.+.. +-...+...+.....+.|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHH
Confidence            9999999999999988764333 34689999999999999999999999988764 223456778888889999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHH
Q 045379          280 EIFEQLQGAGIEPDVYAYNALME  302 (352)
Q Consensus       280 ~l~~~m~~~~~~p~~~~~~~li~  302 (352)
                      ..++.....+. ++..+....|+
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~ir  215 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIR  215 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHH
Confidence            99999887765 66666555553

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

Probab=98.79  E-value=9.8e-06  Score=77.43  Aligned_cols=270  Identities=13%  Similarity=0.076  Sum_probs=164.2

Q ss_pred             HHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHh--------HHHHHHHHHHHccCCHHHH
Q 045379           71 RFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMS--------CVSILLIEAYGQKSLHKKA  138 (352)
Q Consensus        71 ~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~--------~~~~~li~~~~~~g~~~~a  138 (352)
                      ....-.|++++|.+++.++    |.+...|-+|..+|.+.|+.+++....-..        .-|-.+.+...+.|.++.|
T Consensus       147 N~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA  226 (895)
T KOG2076|consen  147 NNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQA  226 (895)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHH
Confidence            3334459999999888765    468889999999999988665433322111        1677777777777777777


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC---------------------------------
Q 045379          139 EFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGL---------------------------------  185 (352)
Q Consensus       139 ~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~---------------------------------  185 (352)
                      .-.|.+..+..+ ++...+-.-+..|-+.|+...|...|.++.+..-                                 
T Consensus       227 ~~cy~rAI~~~p-~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~  305 (895)
T KOG2076|consen  227 RYCYSRAIQANP-SNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEG  305 (895)
T ss_pred             HHHHHHHHhcCC-cchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            777777776543 3444555556666677777777766666655421                                 


Q ss_pred             -------CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcC---------------------------CCCCHHHHHHHH
Q 045379          186 -------PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDC---------------------------CQPSTETYTLMI  231 (352)
Q Consensus       186 -------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---------------------------~~~~~~~~~~li  231 (352)
                             ..+...++.++..|.+..+++.|......+....                           ..++...+ -++
T Consensus       306 ~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~-rl~  384 (895)
T KOG2076|consen  306 ALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI-RLM  384 (895)
T ss_pred             HHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH-hHh
Confidence                   1223334455555555555555555544444311                           11122221 122


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----
Q 045379          232 NLYGKASKSFMALKLFNEMRSHKC--KPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR----  305 (352)
Q Consensus       232 ~~~~~~g~~~~a~~l~~~m~~~g~--~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----  305 (352)
                      -++......+....+...+.+..+  .-+...|.-+..+|...|++.+|+.+|..+......-+...|-.+-+.|-    
T Consensus       385 icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e  464 (895)
T KOG2076|consen  385 ICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGE  464 (895)
T ss_pred             hhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhh
Confidence            222333333333333333343332  23344677888899999999999999999987754555666666666665    


Q ss_pred             ------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          306 ------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       306 ------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                            .++..-.-.+-+...-..|-..+-+.|+.|+|.+.+.
T Consensus       465 ~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~  507 (895)
T KOG2076|consen  465 YEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLE  507 (895)
T ss_pred             HHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHh
Confidence                  3333322234466667778888999999999999876

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

Probab=98.79  E-value=1.9e-06  Score=76.21  Aligned_cols=197  Identities=19%  Similarity=0.187  Sum_probs=129.0

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHH
Q 045379          131 QKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVE  210 (352)
Q Consensus       131 ~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  210 (352)
                      -.|++++|.+.|++.+...-.-+...||+ --.+-..|++++|+++|-.+... +..+..+.-.+.+.|-...+...|.+
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            35788888888888876443333333333 33456678888888887666443 22345555666667777777777777


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 045379          211 IFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGI  290 (352)
Q Consensus       211 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~  290 (352)
                      ++.+.... ++.|+....-|...|-+.|+-..|.+..-+-... .+-+..|..+|...|....-++++.++|++..-  +
T Consensus       580 ~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--i  655 (840)
T KOG2003|consen  580 LLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--I  655 (840)
T ss_pred             HHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--c
Confidence            77665543 3446667777777777777777776655443322 355666777777777777777777777776542  4


Q ss_pred             CCCHHHHHHHHHHHH-----------HHHHHhcCCCCCHHHHHHHHHHHHHcCC
Q 045379          291 EPDVYAYNALMEAYR-----------LISRMHMGCEPDRASYNIMVDAYGRAGL  333 (352)
Q Consensus       291 ~p~~~~~~~li~a~~-----------~~~~m~~~~~p~~~~~~~li~a~~~~g~  333 (352)
                      .|+..-|..+|..|.           +++..+..++-|.....-|++.+...|.
T Consensus       656 qp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  656 QPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             CccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            677777777775554           5555566777788888888888877774

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

Probab=98.78  E-value=8e-06  Score=66.30  Aligned_cols=198  Identities=14%  Similarity=0.015  Sum_probs=163.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC-CchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP-PTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYL  143 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~  143 (352)
                      +.-.|.-.|-..|+...|..-+++.. .|+..+.                       +|..+...|-+.|..+.|.+.|+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~-----------------------a~~~~A~~Yq~~Ge~~~A~e~Yr   93 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYL-----------------------AHLVRAHYYQKLGENDLADESYR   93 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHH-----------------------HHHHHHHHHHHcCChhhHHHHHH
Confidence            44677888999999999999888754 4544443                       78888899999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC
Q 045379          144 ELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY-GLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQP  222 (352)
Q Consensus       144 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  222 (352)
                      +....... +....|+--.-+|.+|++++|...|++.... ...--..+|..+.-+..+.|+.+.|...|++-.+.. +-
T Consensus        94 kAlsl~p~-~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~  171 (250)
T COG3063          94 KALSLAPN-NGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQ  171 (250)
T ss_pred             HHHhcCCC-ccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cC
Confidence            99875532 5668889999999999999999999998775 233335788899999999999999999999988763 22


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          223 STETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       223 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      ...+.-.+.....+.|++-.|...++.....+. ++..+.-..|..--..|+-+.+-+.=.++.+.
T Consensus       172 ~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         172 FPPALLELARLHYKAGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             CChHHHHHHHHHHhcccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            345677788888999999999999999887765 89999988999989999999988888887754

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

Probab=98.77  E-value=4e-06  Score=80.61  Aligned_cols=279  Identities=12%  Similarity=0.058  Sum_probs=168.0

Q ss_pred             ccCcCcCcchhHHHHHHHHHhcCCHHHHHHHhcCCC--------Cchh-------hHHHHHHHHHHHhhccCcchhhHHh
Q 045379           55 VDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLP--------PTHA-------TWDDLINVSVQLRLNKKWDPIVLMS  119 (352)
Q Consensus        55 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~-------~~~~l~~~~~~~~~~~~~~~~~~~~  119 (352)
                      .....+.-+.+.|++.......|+++.|...|+...        ++..       -|| +..+....++...+++++...
T Consensus       444 ~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YN-larl~E~l~~~~~A~e~Yk~I  522 (1018)
T KOG2002|consen  444 ESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYN-LARLLEELHDTEVAEEMYKSI  522 (1018)
T ss_pred             HHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHH-HHHHHHhhhhhhHHHHHHHHH
Confidence            445555444588999999999999999998886432        2221       232 333444455555555555443


Q ss_pred             H-HHHHHHHHHHcc-------CCHHHHHHHHHHHHhCC-----------------------------------CCCCHHH
Q 045379          120 C-VSILLIEAYGQK-------SLHKKAEFTYLELLDSR-----------------------------------CIPTEDT  156 (352)
Q Consensus       120 ~-~~~~li~~~~~~-------g~~~~a~~l~~~m~~~~-----------------------------------~~p~~~~  156 (352)
                      . -+-..|++|.+.       +...+|...++...+..                                   ..+|+.+
T Consensus       523 lkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~Ys  602 (1018)
T KOG2002|consen  523 LKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYS  602 (1018)
T ss_pred             HHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhH
Confidence            3 222233333333       34455555555544321                                   1234444


Q ss_pred             HHHHHHHHHH------------cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCH
Q 045379          157 YALLLKAYCM------------SGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPST  224 (352)
Q Consensus       157 ~~~li~~~~~------------~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~  224 (352)
                      ...|-+.|.+            .+..+.|+++|.+..+.. +-|...-|-+--.++..|++++|..+|.++.+... -..
T Consensus       603 liaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~  680 (1018)
T KOG2002|consen  603 LIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFE  680 (1018)
T ss_pred             HHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCC
Confidence            4444444432            234566777777766653 45666667777777888888888888888887643 244


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045379          225 ETYTLMINLYGKASKSFMALKLFNEMRSH-KCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEA  303 (352)
Q Consensus       225 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~-g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a  303 (352)
                      .+|-.+..+|..+|++..|+++|+...+. .-+-+....+.|.+++-+.|.+.+|.+...........-...-||..+-.
T Consensus       681 dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~  760 (1018)
T KOG2002|consen  681 DVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVL  760 (1018)
T ss_pred             ceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHH
Confidence            57778888888888888888888876543 33456667788888888888888888888777766544455566665544


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          304 YRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       304 ~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ..+-......-+++..-....      .+..++|.++|.
T Consensus       761 kkla~s~lr~~k~t~eev~~a------~~~le~a~r~F~  793 (1018)
T KOG2002|consen  761 KKLAESILRLEKRTLEEVLEA------VKELEEARRLFT  793 (1018)
T ss_pred             HHHHHHHHhcccccHHHHHHH------HHHHHHHHHHHH
Confidence            443333322223333322222      234566666665

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

Probab=98.76  E-value=6e-07  Score=82.82  Aligned_cols=241  Identities=13%  Similarity=0.028  Sum_probs=188.3

Q ss_pred             cccCccccccccccCcCcCcchhHHHHHHHHHhcCCHHHHHHHhcCC---------------------------------
Q 045379           43 LRGKGWKYGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSL---------------------------------   89 (352)
Q Consensus        43 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---------------------------------   89 (352)
                      .+..++..... ....++.+..+...+..+|.+.+++++|.++|+.+                                 
T Consensus       334 ~~~~A~~~~~k-lp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEK-LPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHh-hHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            34444444434 45566777778899999999999999999999744                                 


Q ss_pred             -----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHH-
Q 045379           90 -----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTED-  155 (352)
Q Consensus        90 -----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~-  155 (352)
                           +..+.+|-.+.++|...++.+.+-+.++...        +|+.+.+-+.....+|.|...|+....    +|+. 
T Consensus       413 Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~----~~~rh  488 (638)
T KOG1126|consen  413 LIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG----VDPRH  488 (638)
T ss_pred             HHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc----CCchh
Confidence                 2367888888888888888776666655444        888888889999999999999998876    4444 


Q ss_pred             --HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 045379          156 --TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINL  233 (352)
Q Consensus       156 --~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  233 (352)
                        .|-.+...|.++++++.|+-.|+...+.+ +-+.+....+...+-+.|+.|+|++++++.....-+ |+-+--.-...
T Consensus       489 YnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~i  566 (638)
T KOG1126|consen  489 YNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASI  566 (638)
T ss_pred             hHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHH
Confidence              55567888999999999999999998864 345667777888899999999999999998765433 44444455667


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 045379          234 YGKASKSFMALKLFNEMRSHKCKPN-ICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEP  292 (352)
Q Consensus       234 ~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p  292 (352)
                      +...+++++|+..++++++.  .|+ ...|..+...|-+.|+.+.|+.-|.-+.+...++
T Consensus       567 l~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg  624 (638)
T KOG1126|consen  567 LFSLGRYVEALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKG  624 (638)
T ss_pred             HHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCcc
Confidence            77889999999999999875  455 4567888899999999999999888887654333

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.73  E-value=8.1e-06  Score=71.73  Aligned_cols=192  Identities=13%  Similarity=-0.002  Sum_probs=128.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC---CchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP---PTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFT  141 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l  141 (352)
                      .+..+...|.+.|+.+.|...|++..   |+.                         ...|+.+...+...|++++|.+.
T Consensus        66 ~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~-------------------------~~a~~~lg~~~~~~g~~~~A~~~  120 (296)
T PRK11189         66 LHYERGVLYDSLGLRALARNDFSQALALRPDM-------------------------ADAYNYLGIYLTQAGNFDAAYEA  120 (296)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC-------------------------HHHHHHHHHHHHHCCCHHHHHHH
Confidence            45555666666677777766655431   111                         11678888889999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCC
Q 045379          142 YLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQ  221 (352)
Q Consensus       142 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  221 (352)
                      |+...+.... +..+|..+..++...|++++|.+.++...+..  |+..........+...+++++|...|++..... .
T Consensus       121 ~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~  196 (296)
T PRK11189        121 FDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-D  196 (296)
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-C
Confidence            9999875422 46688888899999999999999999988753  433222222333456778999999997755432 3


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CC--C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 045379          222 PSTETYTLMINLYGKASKSFMALKLFNEMRSH---KC--K-PNICTYTALVNAFAREGLCEEAEEIFEQLQGAG  289 (352)
Q Consensus       222 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~---g~--~-p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~  289 (352)
                      |+...+ .+  .....|+..++ +.+..+.+.   ..  . .....|..+...+.+.|++++|...|++..+.+
T Consensus       197 ~~~~~~-~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        197 KEQWGW-NI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             ccccHH-HH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            332222 22  23335555444 344444421   11  1 123578999999999999999999999998765

>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=98.70  E-value=2.2e-05  Score=73.41  Aligned_cols=238  Identities=17%  Similarity=0.125  Sum_probs=119.6

Q ss_pred             HHHHhcCCHHHHHHHhcCCC---CchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 045379           71 RFVQREVDSNTIWDAFDSLP---PTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLD  147 (352)
Q Consensus        71 ~~~~~~g~~~~A~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  147 (352)
                      ..+...|++++|++.+++..   .|..+                         ........+.+.|+.++|..+|..+.+
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~I~Dk~~-------------------------~~E~rA~ll~kLg~~~eA~~~y~~Li~   66 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQILDKLA-------------------------VLEKRAELLLKLGRKEEAEKIYRELID   66 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhhCCCHHH-------------------------HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44578899999999998654   23333                         345556778888999999999999988


Q ss_pred             CCCCCCHHHHHHHHHHHH-Hc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH-HHHHHHHHHHHHcCC
Q 045379          148 SRCIPTEDTYALLLKAYC-MS-----GLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNP-QKAVEIFQRMKRDCC  220 (352)
Q Consensus       148 ~~~~p~~~~~~~li~~~~-~~-----g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~~~  220 (352)
                      .+  |+...|...+..+. -.     .+.+...++++++.+.-  |.......+.-.+.....+ ..+..++..+..+|+
T Consensus        67 rN--Pdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~Kgv  142 (517)
T PF12569_consen   67 RN--PDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGV  142 (517)
T ss_pred             HC--CCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCC
Confidence            76  55555544444443 22     24666777777775542  2222221111111111111 123333344444444


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----C----------CCCCHH--HHHHHHHHHHhcCCHHHHHHHHHH
Q 045379          221 QPSTETYTLMINLYGKASKSFMALKLFNEMRSH----K----------CKPNIC--TYTALVNAFAREGLCEEAEEIFEQ  284 (352)
Q Consensus       221 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----g----------~~p~~~--t~~~li~~~~~~g~~~~a~~l~~~  284 (352)
                      ++   +|+.|-..|....+.+-..+++......    +          -.|+..  ++..+...|-..|++++|++++++
T Consensus       143 Ps---lF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~  219 (517)
T PF12569_consen  143 PS---LFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDK  219 (517)
T ss_pred             ch---HHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            32   3444444444333333333333333211    0          112222  223333444445555555555555


Q ss_pred             HHHCCCCCCH-HHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          285 LQGAGIEPDV-YAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       285 m~~~~~~p~~-~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ..+.  .|+. ..|..-.+.+.          .++....--.-|...=+-.+..+.++|++++|.+++.
T Consensus       220 aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~  286 (517)
T PF12569_consen  220 AIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTAS  286 (517)
T ss_pred             HHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            4443  2331 11211111111          1111111113366666777888999999999999875

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 [], [].

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

Probab=98.66  E-value=6.1e-06  Score=73.32  Aligned_cols=210  Identities=16%  Similarity=0.133  Sum_probs=119.7

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHcCCC
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGL--PPSAVVYNSYIDGLLKGGN  204 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~g~  204 (352)
                      .++-...+.+++..=.......|++-+...-+-...+.-.+.++|+|+.+|++..+...  -.|..+|..++-  .+..+
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LY--v~~~~  312 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLY--VKNDK  312 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHH--HHhhh
Confidence            33444456666666666666666654444444444555567788888888888877621  124555655543  22222


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 045379          205 PQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQ  284 (352)
Q Consensus       205 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~  284 (352)
                      -..+.-...-..-.  +--+.|+.++.+-|+-.++.++|...|+...+.+ +-....|+.+-+-|....+...|.+-++.
T Consensus       313 skLs~LA~~v~~id--KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRr  389 (559)
T KOG1155|consen  313 SKLSYLAQNVSNID--KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRR  389 (559)
T ss_pred             HHHHHHHHHHHHhc--cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHH
Confidence            11111111111111  2234455666666777777777777777776653 22344566666777777777777777777


Q ss_pred             HHHCCCCCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          285 LQGAGIEPDVYAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       285 m~~~~~~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .++-. +.|-..|--+-++|.          .|++...--+-|+..|.+|.+.|.+.++.++|.+.|.
T Consensus       390 Avdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCyk  456 (559)
T KOG1155|consen  390 AVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYK  456 (559)
T ss_pred             HHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHH
Confidence            76532 234455555555555          3444432234467777777777777777777777764

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.66  E-value=6.9e-06  Score=69.67  Aligned_cols=166  Identities=18%  Similarity=0.105  Sum_probs=124.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CC-HHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCI-PT-EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLP-PS-AVVYNSYI  196 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~-p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~-~~~~~~li  196 (352)
                      .+-.+...+.+.|++++|...|+++...... |. ..++..+..++...|++++|...++++.+..-. |. ..++..+-
T Consensus        35 ~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g  114 (235)
T TIGR03302        35 ELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRG  114 (235)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHH
Confidence            5666777889999999999999999875421 11 247788889999999999999999999875321 11 12444455


Q ss_pred             HHHHcC--------CCHHHHHHHHHHHHHcCCCCC-HHHH-----------------HHHHHHHHhcCCHHHHHHHHHHH
Q 045379          197 DGLLKG--------GNPQKAVEIFQRMKRDCCQPS-TETY-----------------TLMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       197 ~~~~~~--------g~~~~a~~~~~~m~~~~~~~~-~~~~-----------------~~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      .++...        |++++|.+.|+++.+..  |+ ...+                 -.+...|.+.|++++|...+++.
T Consensus       115 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~a  192 (235)
T TIGR03302       115 LSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETV  192 (235)
T ss_pred             HHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            555544        78899999999998763  33 2221                 13456678899999999999998


Q ss_pred             HhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          251 RSHK--CKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       251 ~~~g--~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      ....  .+.....+..+..++.+.|++++|..+++.+...
T Consensus       193 l~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       193 VENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            7652  1234578899999999999999999999988754

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).

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

Probab=98.61  E-value=4.9e-05  Score=69.29  Aligned_cols=246  Identities=13%  Similarity=-0.003  Sum_probs=175.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHcc
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQK  132 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~  132 (352)
                      +...-++-+..++++++..++++.+    |.+...+..=|.++...|+....-.+-..+.        +|-++.-.|.-.
T Consensus       246 ll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aVg~YYl~i  325 (611)
T KOG1173|consen  246 LLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFAVGCYYLMI  325 (611)
T ss_pred             HHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhhHHHHHHHh
Confidence            3445566677788999987776654    4555555555566666665433222211111        999999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--C-CCCCHHHHHHHHHHHHcCCCHHHH
Q 045379          133 SLHKKAEFTYLELLDSRCIPT-EDTYALLLKAYCMSGLLEKAEAVFREMRKY--G-LPPSAVVYNSYIDGLLKGGNPQKA  208 (352)
Q Consensus       133 g~~~~a~~l~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g-~~~~~~~~~~li~~~~~~g~~~~a  208 (352)
                      |..++|.+.|.+....+  |+ ...|.....+++-.|..|+|...+...-+.  | ..|.  .|.  --=|.+.++.+.|
T Consensus       326 ~k~seARry~SKat~lD--~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~--LYl--gmey~~t~n~kLA  399 (611)
T KOG1173|consen  326 GKYSEARRYFSKATTLD--PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPS--LYL--GMEYMRTNNLKLA  399 (611)
T ss_pred             cCcHHHHHHHHHHhhcC--ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchH--HHH--HHHHHHhccHHHH
Confidence            99999999998776532  43 348999999999999999999998877653  2 2332  222  2236778999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----C--CCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 045379          209 VEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH----K--CKPNICTYTALVNAFAREGLCEEAEEIF  282 (352)
Q Consensus       209 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----g--~~p~~~t~~~li~~~~~~g~~~~a~~l~  282 (352)
                      .++|.+..... +.|+...+-+--.....+.+.+|..+|+.....    +  ..-...+++.|-.+|.+.+.+++|+..+
T Consensus       400 e~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~  478 (611)
T KOG1173|consen  400 EKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYY  478 (611)
T ss_pred             HHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHH
Confidence            99999887652 557778888888888889999999999887521    1  1124457899999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          283 EQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       283 ~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ++.....                         +-+..++.++.-.|...|+++.|.+.|+
T Consensus       479 q~aL~l~-------------------------~k~~~~~asig~iy~llgnld~Aid~fh  513 (611)
T KOG1173|consen  479 QKALLLS-------------------------PKDASTHASIGYIYHLLGNLDKAIDHFH  513 (611)
T ss_pred             HHHHHcC-------------------------CCchhHHHHHHHHHHHhcChHHHHHHHH
Confidence            9887541                         3366666666666666666666666665

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

Probab=98.60  E-value=4.4e-06  Score=72.72  Aligned_cols=151  Identities=15%  Similarity=0.059  Sum_probs=113.7

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH----HHHcC
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYID----GLLKG  202 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~----~~~~~  202 (352)
                      ..+...|++++|++++..-      .+.......+..+.+.+++|.|.+.++.|.+.+  .| .+...+..    .+...
T Consensus       110 ~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~  180 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGG  180 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCc
Confidence            4566789999999887643      467788888999999999999999999998753  34 33333333    33345


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH-HHHHHH
Q 045379          203 GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLC-EEAEEI  281 (352)
Q Consensus       203 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~-~~a~~l  281 (352)
                      +.+++|..+|+++.+. ..++..+.|.+..++...|++++|++++.+..... +-+..+...++-.....|+. +.+.++
T Consensus       181 e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~  258 (290)
T PF04733_consen  181 EKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERY  258 (290)
T ss_dssp             TCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHH
Confidence            5799999999998765 56788999999999999999999999999976554 34566788888888888887 778888


Q ss_pred             HHHHHHC
Q 045379          282 FEQLQGA  288 (352)
Q Consensus       282 ~~~m~~~  288 (352)
                      +.++...
T Consensus       259 l~qL~~~  265 (290)
T PF04733_consen  259 LSQLKQS  265 (290)
T ss_dssp             HHHCHHH
T ss_pred             HHHHHHh
Confidence            8888754

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.

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

Probab=98.58  E-value=2e-05  Score=76.26  Aligned_cols=242  Identities=14%  Similarity=0.072  Sum_probs=187.4

Q ss_pred             HHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhH---HHHHHHHHHHccCCHHHHHHHHHH
Q 045379           68 QILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSC---VSILLIEAYGQKSLHKKAEFTYLE  144 (352)
Q Consensus        68 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~l~~~  144 (352)
                      .+...+...+-+++|..+|++..-+....+.++.-.....+   +.+..+.+.   +|+.+..+-.+.|.+.+|.+-|-+
T Consensus      1053 ~ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldR---A~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyik 1129 (1666)
T KOG0985|consen 1053 DIAEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDR---AYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIK 1129 (1666)
T ss_pred             hHHHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHH---HHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHh
Confidence            34455566677888888888877666666666654433333   333333333   999999999999999999887754


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCH
Q 045379          145 LLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPST  224 (352)
Q Consensus       145 m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~  224 (352)
                      .      -|+..|..+++.+.+.|.|++-.+.+...++..-.|.+  =+.||-+|++.+++.+.+.++.       -|+.
T Consensus      1130 a------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~elE~fi~-------gpN~ 1194 (1666)
T KOG0985|consen 1130 A------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLTELEEFIA-------GPNV 1194 (1666)
T ss_pred             c------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHHHHHHHhc-------CCCc
Confidence            3      47889999999999999999999999888888776754  4578999999999887766542       4788


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          225 ETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAY  304 (352)
Q Consensus       225 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~  304 (352)
                      .-...+-.-|...|.++.|.-++...         .-|..|...+...|++..|...-++.      -+..||..+-.||
T Consensus      1195 A~i~~vGdrcf~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaC 1259 (1666)
T KOG0985|consen 1195 ANIQQVGDRCFEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFAC 1259 (1666)
T ss_pred             hhHHHHhHHHhhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHH
Confidence            88888888899999999887777643         45888888899999999887765553      4778999999888


Q ss_pred             H-----HHHHH-hcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          305 R-----LISRM-HMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       305 ~-----~~~~m-~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .     -+.+| .-++.....-..-||.-|-..|-++|-..++.
T Consensus      1260 vd~~EFrlAQiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~E 1303 (1666)
T KOG0985|consen 1260 VDKEEFRLAQICGLNIIVHADELEELIEYYQDRGYFEELISLLE 1303 (1666)
T ss_pred             hchhhhhHHHhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHH
Confidence            7     44555 66667778888899999999999999888875

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

Probab=98.57  E-value=3e-05  Score=69.55  Aligned_cols=207  Identities=13%  Similarity=0.052  Sum_probs=147.7

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 045379          132 KSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEI  211 (352)
Q Consensus       132 ~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  211 (352)
                      .|+...|..-|+...+....++ ..|.-+..+|....+.++.++.|+...+.+ +-+..+|..--..+.-.+++++|..=
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aD  416 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIAD  416 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHH
Confidence            5667777777777766443322 227777778888888999999998887764 34566777777777777889999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 045379          212 FQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIE  291 (352)
Q Consensus       212 ~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~  291 (352)
                      |++.++.. +-+...|-.+-.+..+.+++++++..|++..+. .+--+..|+.....+..+++++.|.+.|+...+....
T Consensus       417 F~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~  494 (606)
T KOG0547|consen  417 FQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPR  494 (606)
T ss_pred             HHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccc
Confidence            99888753 225566777777777889999999999999865 4555678999999999999999999999988754211


Q ss_pred             -----CCHHH--HHHHH---------HHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          292 -----PDVYA--YNALM---------EAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       292 -----p~~~~--~~~li---------~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                           .+..+  -.+++         .|..++++.-.--+-....|..|...-.+.|+.++|+++|.
T Consensus       495 ~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFE  561 (606)
T KOG0547|consen  495 EHLIIVNAAPLVHKALLVLQWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFE  561 (606)
T ss_pred             cccccccchhhhhhhHhhhchhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence                 11111  11111         22223333311223356679999999999999999999996

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

Probab=98.55  E-value=0.00014  Score=65.77  Aligned_cols=255  Identities=11%  Similarity=-0.076  Sum_probs=142.8

Q ss_pred             HHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhc-cCcchhhHHhH-----------HHHHHHHHHHccC
Q 045379           70 LRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLN-KKWDPIVLMSC-----------VSILLIEAYGQKS  133 (352)
Q Consensus        70 ~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~-~~~~~~~~~~~-----------~~~~li~~~~~~g  133 (352)
                      ...+...|++++|...+++.    |.+...+.. ...+...+.. +..........           ....+...+...|
T Consensus        50 a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G  128 (355)
T cd05804          50 ALSAWIAGDLPKALALLEQLLDDYPRDLLALKL-HLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAG  128 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHH-hHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcC
Confidence            44556789999998877653    445545443 2222222221 11111111111           3344556778889


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCCH--HHHHHHHHHHHcCCCHHHHHH
Q 045379          134 LHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGL-PPSA--VVYNSYIDGLLKGGNPQKAVE  210 (352)
Q Consensus       134 ~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~~~~--~~~~~li~~~~~~g~~~~a~~  210 (352)
                      ++++|.+.+++..+... .+...+..+..++...|++++|...+++..+..- .|+.  ..|..+...+...|++++|..
T Consensus       129 ~~~~A~~~~~~al~~~p-~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~  207 (355)
T cd05804         129 QYDRAEEAARRALELNP-DDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALA  207 (355)
T ss_pred             CHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHH
Confidence            99999999988887653 3466778888888889999999998888766422 2232  345567788888899999999


Q ss_pred             HHHHHHHcCC-CCCHHHH-H--HHHHHHHhcCCHHHHHHH---HHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 045379          211 IFQRMKRDCC-QPSTETY-T--LMINLYGKASKSFMALKL---FNEMRSHKC-KPNICTYTALVNAFAREGLCEEAEEIF  282 (352)
Q Consensus       211 ~~~~m~~~~~-~~~~~~~-~--~li~~~~~~g~~~~a~~l---~~~m~~~g~-~p~~~t~~~li~~~~~~g~~~~a~~l~  282 (352)
                      ++++...... .+..... +  .++.-+...|....+.+.   ...-..... ............++...|+.++|..++
T Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L  287 (355)
T cd05804         208 IYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLL  287 (355)
T ss_pred             HHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHH
Confidence            9988754321 1222211 1  223333344433322222   111111100 111122235667777888888898888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          283 EQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       283 ~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ..+......++..-+                .......-....-++...|+.++|.+.+.
T Consensus       288 ~~l~~~~~~~~~~~~----------------~~~~~~~~~l~A~~~~~~g~~~~A~~~L~  331 (355)
T cd05804         288 AALKGRASSADDNKQ----------------PARDVGLPLAEALYAFAEGNYATALELLG  331 (355)
T ss_pred             HHHHHHHhccCchhh----------------hHHhhhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            888654222110000                00112222334445678899999988875

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.

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

Probab=98.53  E-value=0.00018  Score=65.00  Aligned_cols=212  Identities=13%  Similarity=-0.016  Sum_probs=136.5

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCM----SGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKG  202 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  202 (352)
                      ..+...|++++|.+.+++..+..+ .+...+.. ...+..    .+..+.+.+.+.. .....+........+...+...
T Consensus        51 ~~~~~~g~~~~A~~~~~~~l~~~P-~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~~  127 (355)
T cd05804          51 LSAWIAGDLPKALALLEQLLDDYP-RDLLALKL-HLGAFGLGDFSGMRDHVARVLPL-WAPENPDYWYLLGMLAFGLEEA  127 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHH-hHHHHHhcccccCchhHHHHHhc-cCcCCCCcHHHHHHHHHHHHHc
Confidence            345678999999999999887542 23444442 223333    3455555555544 1122223344555667788899


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCH--HHHHHHHHHHHhcCCHHHHH
Q 045379          203 GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKC-KPNI--CTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       203 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~-~p~~--~t~~~li~~~~~~g~~~~a~  279 (352)
                      |++++|...+++..+.. +.+...+..+...+...|++++|...+++.....- .|+.  ..|..+...+...|++++|.
T Consensus       128 G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~  206 (355)
T cd05804         128 GQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAAL  206 (355)
T ss_pred             CCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999998874 44567888899999999999999999998876431 2333  24557888899999999999


Q ss_pred             HHHHHHHHCCC-CCCHHHH-HH--HHHHHH---------HHHHH-hc--C-C--CCCHHHHHHHHHHHHHcCCcchhHHH
Q 045379          280 EIFEQLQGAGI-EPDVYAY-NA--LMEAYR---------LISRM-HM--G-C--EPDRASYNIMVDAYGRAGLHEGKCSY  340 (352)
Q Consensus       280 ~l~~~m~~~~~-~p~~~~~-~~--li~a~~---------~~~~m-~~--~-~--~p~~~~~~~li~a~~~~g~~~~A~~~  340 (352)
                      .++++...... .+..... +.  ++.-+.         -++.+ ..  . .  ............++...|+.++|.+.
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~  286 (355)
T cd05804         207 AIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKL  286 (355)
T ss_pred             HHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHH
Confidence            99999864322 2222221 21  111111         22222 11  1 1  11122223677888999999999998


Q ss_pred             HH
Q 045379          341 SL  342 (352)
Q Consensus       341 ~~  342 (352)
                      +.
T Consensus       287 L~  288 (355)
T cd05804         287 LA  288 (355)
T ss_pred             HH
Confidence            85

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.

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

Probab=98.53  E-value=0.00068  Score=63.24  Aligned_cols=273  Identities=14%  Similarity=0.076  Sum_probs=139.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcC----CCCchhhHHHHHHHHHHHhhccCcchhhHHhH--------------------
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDS----LPPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------------------  120 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------------------  120 (352)
                      ....|..+|++.--++.|.+++.+    +|.+...|.+....=..+|+...+++++..-.                    
T Consensus       408 ~s~dLwlAlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe  487 (913)
T KOG0495|consen  408 QSMDLWLALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAE  487 (913)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHH
Confidence            334556666676777778777754    45677778766665555555555444432211                    


Q ss_pred             ------------------------------HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCH
Q 045379          121 ------------------------------VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLL  170 (352)
Q Consensus       121 ------------------------------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~  170 (352)
                                                    +|+.-...|.+.+.++-|..+|....+--. .+...|......=-..|..
T Consensus       488 ~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp-~k~slWlra~~~ek~hgt~  566 (913)
T KOG0495|consen  488 ACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFP-CKKSLWLRAAMFEKSHGTR  566 (913)
T ss_pred             HHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhcc-chhHHHHHHHHHHHhcCcH
Confidence                                          777777777777777777777776665321 1333444333333334444


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          171 EKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       171 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      +....++.+.... ++-....|-...+-+...|+...|..++.+..+.. +-+...|-+-+..-....++++|..+|.+.
T Consensus       567 Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llaka  644 (913)
T KOG0495|consen  567 ESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKA  644 (913)
T ss_pred             HHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            5555555444433 22222333333344444444444444444444332 113334444444444444444444444444


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------------------------------C--CCCCHHHHH
Q 045379          251 RSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA------------------------------G--IEPDVYAYN  298 (352)
Q Consensus       251 ~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~------------------------------~--~~p~~~~~~  298 (352)
                      ...  .|+...|.--++.---.++.++|.+++++..+.                              |  .-|+..-.-
T Consensus       645 r~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLW  722 (913)
T KOG0495|consen  645 RSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLW  722 (913)
T ss_pred             hcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHH
Confidence            332  334444433333333344444444444433322                              0  112221111


Q ss_pred             HH-----------HHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          299 AL-----------MEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       299 ~l-----------i~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .+           +.|=.+++.-...-+-|...|-..|..=.+.|+.+.|..++.
T Consensus       723 llLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lma  777 (913)
T KOG0495|consen  723 LLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMA  777 (913)
T ss_pred             HHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHH
Confidence            11           122225555533345688889999999999999999987764

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

Probab=98.52  E-value=6.3e-05  Score=68.63  Aligned_cols=237  Identities=14%  Similarity=0.116  Sum_probs=181.0

Q ss_pred             cCcchhHHHHHHHHHhcCCHHH----HHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHH
Q 045379           60 PVLSPTAQQILRFVQREVDSNT----IWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIE  127 (352)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~----A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~  127 (352)
                      |-..+.+..=|..+.+.|+..+    +.++-+.-|..+.+|-++.--|...++..++...+....        .|-....
T Consensus       275 pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fgh  354 (611)
T KOG1173|consen  275 PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGH  354 (611)
T ss_pred             CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhH
Confidence            3344455455556667776655    355556667788999999888887787777777665554        8999999


Q ss_pred             HHHccCCHHHHHHHHHHHHhC--C-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC
Q 045379          128 AYGQKSLHKKAEFTYLELLDS--R-CIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGN  204 (352)
Q Consensus       128 ~~~~~g~~~~a~~l~~~m~~~--~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  204 (352)
                      .|+-.|..++|...|...-+-  | ..|.    --+---|.+.+..+.|.++|.+.... .|.|+.+.+.+--.....+.
T Consensus       355 sfa~e~EhdQAmaaY~tAarl~~G~hlP~----LYlgmey~~t~n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~  429 (611)
T KOG1173|consen  355 SFAGEGEHDQAMAAYFTAARLMPGCHLPS----LYLGMEYMRTNNLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEE  429 (611)
T ss_pred             HhhhcchHHHHHHHHHHHHHhccCCcchH----HHHHHHHHHhccHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhh
Confidence            999999999999988766542  2 1232    22334577889999999999998776 35677888888777778899


Q ss_pred             HHHHHHHHHHHHHc--C----CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 045379          205 PQKAVEIFQRMKRD--C----CQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEA  278 (352)
Q Consensus       205 ~~~a~~~~~~m~~~--~----~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  278 (352)
                      +.+|...|+..++.  .    ...-..+++.|-.+|.+.+.+++|+..+++..... +-+..++.++.-.|...|+++.|
T Consensus       430 y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~A  508 (611)
T KOG1173|consen  430 YPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKA  508 (611)
T ss_pred             hHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHH
Confidence            99999999887631  0    11134568999999999999999999999987653 56888999999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          279 EEIFEQLQGAGIEPDVYAYNALMEAY  304 (352)
Q Consensus       279 ~~l~~~m~~~~~~p~~~~~~~li~a~  304 (352)
                      ...|.+..  .+.|+-.+...++..+
T Consensus       509 id~fhKaL--~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  509 IDHFHKAL--ALKPDNIFISELLKLA  532 (611)
T ss_pred             HHHHHHHH--hcCCccHHHHHHHHHH
Confidence            99999876  4588887777777544

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

Probab=98.52  E-value=0.00014  Score=69.88  Aligned_cols=236  Identities=13%  Similarity=0.051  Sum_probs=164.4

Q ss_pred             HhhccCcchhhHHhH--------HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 045379          106 LRLNKKWDPIVLMSC--------VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVF  177 (352)
Q Consensus       106 ~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  177 (352)
                      .|+.+.+.++.....        .|.+|...|-+.|+.+++...+-..-.-+. -|..-|..+-....++|.+++|.-.|
T Consensus       152 rg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p-~d~e~W~~ladls~~~~~i~qA~~cy  230 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNP-KDYELWKRLADLSEQLGNINQARYCY  230 (895)
T ss_pred             hCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHhcccHHHHHHHH
Confidence            366666665554433        899999999999999988877654443332 35678888888888999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          178 REMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPST----ETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       178 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      .+..+.. +++...+-.-...|-+.|+...|..-|.++.+..-+.|.    ...-..+..+...++-+.|.+.++.....
T Consensus       231 ~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~  309 (895)
T KOG2076|consen  231 SRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSK  309 (895)
T ss_pred             HHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            9988874 455555555667788899999999999998876322222    22334566677778888888888887652


Q ss_pred             -CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---------------------------CCCCHHHHHHHHHHHH
Q 045379          254 -KCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAG---------------------------IEPDVYAYNALMEAYR  305 (352)
Q Consensus       254 -g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~---------------------------~~p~~~~~~~li~a~~  305 (352)
                       +-..+...++.++..|.+..+++.|......+....                           +.++...+..++.-..
T Consensus       310 ~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~  389 (895)
T KOG2076|consen  310 EKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVH  389 (895)
T ss_pred             ccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhc
Confidence             234556678899999999999999999988887622                           2223333222221111


Q ss_pred             ---------HHHHH-hcC--CCCCHHHHHHHHHHHHHcCCcchhHHHHHH
Q 045379          306 ---------LISRM-HMG--CEPDRASYNIMVDAYGRAGLHEGKCSYSLV  343 (352)
Q Consensus       306 ---------~~~~m-~~~--~~p~~~~~~~li~a~~~~g~~~~A~~~~~~  343 (352)
                               +.... ...  ..-+...|.-+.++|...|++++|+++|.-
T Consensus       390 L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~  439 (895)
T KOG2076|consen  390 LKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSP  439 (895)
T ss_pred             ccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence                     33333 334  333677788889999999999999999863

>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=98.49  E-value=0.00036  Score=65.45  Aligned_cols=261  Identities=15%  Similarity=0.076  Sum_probs=166.6

Q ss_pred             CcCcchhHHHHHHHHHhcCCHHHHHHHhcCCC---C-chhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHcc--
Q 045379           59 FPVLSPTAQQILRFVQREVDSNTIWDAFDSLP---P-THATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQK--  132 (352)
Q Consensus        59 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~--  132 (352)
                      .++...+....+..+.+.|+.++|..++..+-   | |..-|..+..+......... +..-.....|..+..-|-++  
T Consensus        34 I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~~~-~~~~~~~~~y~~l~~~yp~s~~  112 (517)
T PF12569_consen   34 ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQLSD-EDVEKLLELYDELAEKYPRSDA  112 (517)
T ss_pred             CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhccccc-ccHHHHHHHHHHHHHhCccccc
Confidence            44445577899999999999999988876653   3 43344444444322221000 01111111333333333221  


Q ss_pred             -----------CCHH-HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----C----------CC
Q 045379          133 -----------SLHK-KAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY----G----------LP  186 (352)
Q Consensus       133 -----------g~~~-~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g----------~~  186 (352)
                                 ..+. .+...+..+...|++   .+|+.|-..|....+.+-..+++......    +          -+
T Consensus       113 ~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~  189 (517)
T PF12569_consen  113 PRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEP  189 (517)
T ss_pred             hhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCC
Confidence                       2222 344455566677764   34666666666666666666666665432    1          23


Q ss_pred             CCH--HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 045379          187 PSA--VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPS-TETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYT  263 (352)
Q Consensus       187 ~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~  263 (352)
                      |+.  .++..+...|-..|++++|..++++.++.  .|+ +..|..-...+-..|++++|.+.++...... .-|...-+
T Consensus       190 p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNs  266 (517)
T PF12569_consen  190 PSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINS  266 (517)
T ss_pred             chHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHH
Confidence            444  45567788889999999999999998886  565 5678888899999999999999999988764 34667777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          264 ALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       264 ~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      -....+.++|++++|.+++....+.+..|-    ..|.++=+.|            -......+|.+.|++..|++.|+
T Consensus       267 K~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~----~~L~~mQc~W------------f~~e~a~a~~r~~~~~~ALk~~~  329 (517)
T PF12569_consen  267 KCAKYLLRAGRIEEAEKTASLFTREDVDPL----SNLNDMQCMW------------FETECAEAYLRQGDYGLALKRFH  329 (517)
T ss_pred             HHHHHHHHCCCHHHHHHHHHhhcCCCCCcc----cCHHHHHHHH------------HHHHHHHHHHHHhhHHHHHHHHH
Confidence            788889999999999999999987665331    1111111100            01244678888899999988875

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

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

Probab=98.45  E-value=6.3e-05  Score=75.20  Aligned_cols=197  Identities=16%  Similarity=0.162  Sum_probs=154.9

Q ss_pred             CCchhhHHHHHHHHHHHhhccCcchhhHHhH-------------HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-HH
Q 045379           90 PPTHATWDDLINVSVQLRLNKKWDPIVLMSC-------------VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT-ED  155 (352)
Q Consensus        90 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-------------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~  155 (352)
                      |.....|-..+....+....+.+.++.+...             .|.++++.-..-|.-+...++|++..+.   .| -.
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy---cd~~~ 1531 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY---CDAYT 1531 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh---cchHH
Confidence            3445667777777766666665555544332             8888888777778889999999998875   34 34


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC---CHHHHHHHHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQP---STETYTLMIN  232 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~---~~~~~~~li~  232 (352)
                      .|..|...|.+.+++++|.++++.|.+. +.-...+|...+..+.++.+-+.|..++.+..+.  -|   ......-.+.
T Consensus      1532 V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAq 1608 (1710)
T KOG1070|consen 1532 VHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQ 1608 (1710)
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHH
Confidence            7888999999999999999999999876 3367789999999999999999999999987764  23   2444555666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 045379          233 LYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPD  293 (352)
Q Consensus       233 ~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~  293 (352)
                      .-.+.|+.+++..+|+.....- +--...|+..|+.=.++|+.+.+..+|++....++.|-
T Consensus      1609 LEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~k 1668 (1710)
T KOG1070|consen 1609 LEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIK 1668 (1710)
T ss_pred             HHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChh
Confidence            6678999999999999987652 33556899999999999999999999999998877663

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

Probab=98.44  E-value=0.00029  Score=68.28  Aligned_cols=181  Identities=12%  Similarity=0.029  Sum_probs=93.8

Q ss_pred             HHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHh-hccCcchhhHHhH-----------HHHHHHHHHHcc
Q 045379           69 ILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLR-LNKKWDPIVLMSC-----------VSILLIEAYGQK  132 (352)
Q Consensus        69 l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~-~~~~~~~~~~~~~-----------~~~~li~~~~~~  132 (352)
                      |..+|.+.|+++.+...|+++    |.+..+...+...|+..+ .....+.+...+.           .|-.+...+-..
T Consensus       348 lgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql~e~~  427 (1018)
T KOG2002|consen  348 LGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQLLEQT  427 (1018)
T ss_pred             hhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHhc
Confidence            444455555555554444433    234556666666666552 2222222222111           555555555444


Q ss_pred             CCHHHHHHHHHHH----HhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC---CCC------CCHHHHHHHHHHH
Q 045379          133 SLHKKAEFTYLEL----LDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY---GLP------PSAVVYNSYIDGL  199 (352)
Q Consensus       133 g~~~~a~~l~~~m----~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~------~~~~~~~~li~~~  199 (352)
                      .-+. ++..|...    ...+..+.+...|.+.......|.+..|...|+.....   ...      +++.+--.+...+
T Consensus       428 d~~~-sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~  506 (1018)
T KOG2002|consen  428 DPWA-SLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLL  506 (1018)
T ss_pred             ChHH-HHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHH
Confidence            3333 35555433    34455577788888888888888888888888877654   111      2222222344445


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTE-TYTLMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      -..++.+.|...|....+.  .|.-. .|--+....-..+...+|...+.+...
T Consensus       507 E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~  558 (1018)
T KOG2002|consen  507 EELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALN  558 (1018)
T ss_pred             HhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHh
Confidence            5556777777777776654  23322 222222222233445555555555443

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.41  E-value=0.00015  Score=61.27  Aligned_cols=267  Identities=15%  Similarity=0.058  Sum_probs=175.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH----------HHHHHHHHHHcc
Q 045379           67 QQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC----------VSILLIEAYGQK  132 (352)
Q Consensus        67 ~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~----------~~~~li~~~~~~  132 (352)
                      ++.+-.+.+..++++|++++..-    |++..-.+.+..+|-...+...+-..++...          .|.  ...+.+.
T Consensus        14 taviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~--AQSLY~A   91 (459)
T KOG4340|consen   14 TAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQ--AQSLYKA   91 (459)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHH--HHHHHHh
Confidence            45666667888899998888543    3466677777777777666655544444332          222  3456677


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH--HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHH
Q 045379          133 SLHKKAEFTYLELLDSRCIPTEDTYALLLKAYC--MSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVE  210 (352)
Q Consensus       133 g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~--~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  210 (352)
                      +.+.+|+++...|.+.   |+...-..=+.+..  +.+++..+..++++....|   +..+.+..-....+.|+++.|.+
T Consensus        92 ~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvq  165 (459)
T KOG4340|consen   92 CIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQ  165 (459)
T ss_pred             cccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHH
Confidence            8899999999888763   33333333333333  4677778888888765433   34455555555678899999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-------------CCHH--------HHHHHHHH-
Q 045379          211 IFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCK-------------PNIC--------TYTALVNA-  268 (352)
Q Consensus       211 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~-------------p~~~--------t~~~li~~-  268 (352)
                      -|+...+-+---....||..+. ..+.|+.+.|++...++.+.|++             ||..        .-+.++.+ 
T Consensus       166 kFqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAf  244 (459)
T KOG4340|consen  166 KFQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAF  244 (459)
T ss_pred             HHHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHh
Confidence            9998877443334667877664 45668999999999999887653             3322        12333333 


Q ss_pred             ------HHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHH--HH-------HHHHHHHhcCCCCCHHHHHHHHHHHHHcC
Q 045379          269 ------FAREGLCEEAEEIFEQLQGA-GIEPDVYAYNALM--EA-------YRLISRMHMGCEPDRASYNIMVDAYGRAG  332 (352)
Q Consensus       269 ------~~~~g~~~~a~~l~~~m~~~-~~~p~~~~~~~li--~a-------~~~~~~m~~~~~p~~~~~~~li~a~~~~g  332 (352)
                            +.+.|+++.|.+.+.+|--+ ....|+.|.+.+.  ++       +.-+.-+..--+-..+||..++-.||++.
T Consensus       245 NLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~~~~p~~g~~KLqFLL~~nPfP~ETFANlLllyCKNe  324 (459)
T KOG4340|consen  245 NLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNMDARPTEGFEKLQFLLQQNPFPPETFANLLLLYCKNE  324 (459)
T ss_pred             hhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcccCCccccHHHHHHHHhcCCCChHHHHHHHHHHhhhH
Confidence                  45788999999999888533 3456777766544  21       11222221112346789999999999999


Q ss_pred             CcchhHHHHH
Q 045379          333 LHEGKCSYSL  342 (352)
Q Consensus       333 ~~~~A~~~~~  342 (352)
                      -++-|.+++.
T Consensus       325 yf~lAADvLA  334 (459)
T KOG4340|consen  325 YFDLAADVLA  334 (459)
T ss_pred             HHhHHHHHHh
Confidence            9999998874

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

Probab=98.40  E-value=0.00028  Score=62.23  Aligned_cols=254  Identities=13%  Similarity=0.019  Sum_probs=150.5

Q ss_pred             cCcCcchhHHHHHHHHHhcCCHHHHHHHhcCCC-CchhhHHHHHHHHHHHhhccCcchhhHHhH-----------HHHHH
Q 045379           58 IFPVLSPTAQQILRFVQREVDSNTIWDAFDSLP-PTHATWDDLINVSVQLRLNKKWDPIVLMSC-----------VSILL  125 (352)
Q Consensus        58 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-----------~~~~l  125 (352)
                      -+|+.......+...+...|+.++|...|++.. -|+.+...|-.-..-.++.+..+..-..+.           -|-.-
T Consensus       227 ~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~  306 (564)
T KOG1174|consen  227 TLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVH  306 (564)
T ss_pred             cCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhh
Confidence            355666688899999999999999999999876 444444433222222222222222211111           23333


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 045379          126 IEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNP  205 (352)
Q Consensus       126 i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  205 (352)
                      .......++++.|+.+-++..+... .+...|..=-..+...|++++|.-.|+..+.-. +-+...|.-|+.+|...|++
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~~-r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~  384 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSEP-RNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRF  384 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccCc-ccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchH
Confidence            3444456677777777776665432 234455444556667788888887777766542 34567888888888888888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHH-HHHHhcCC-HHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHH
Q 045379          206 QKAVEIFQRMKRDCCQPSTETYTLMI-NLYGKASK-SFMALKLFNEMRSHKCKPNI-CTYTALVNAFAREGLCEEAEEIF  282 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~~~~~~~~~li-~~~~~~g~-~~~a~~l~~~m~~~g~~p~~-~t~~~li~~~~~~g~~~~a~~l~  282 (352)
                      .+|...-++..+. ++-+..+.+.+- ..|..... -++|.++++.-...  .|+- ...+.+...|...|..+++..++
T Consensus       385 kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LL  461 (564)
T KOG1174|consen  385 KEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLL  461 (564)
T ss_pred             HHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHH
Confidence            8877766654432 123444444441 22222222 25666666654433  4442 34556666777778888888777


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          283 EQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       283 ~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      +.....                          .||....+.|.+.+...+.+.+|.+.|.
T Consensus       462 e~~L~~--------------------------~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~  495 (564)
T KOG1174|consen  462 EKHLII--------------------------FPDVNLHNHLGDIMRAQNEPQKAMEYYY  495 (564)
T ss_pred             HHHHhh--------------------------ccccHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            776543                          4556666666666666666666666665

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.39  E-value=6e-07  Score=51.11  Aligned_cols=33  Identities=18%  Similarity=0.164  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT  153 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~  153 (352)
                      +||++|++|++.|++++|.++|++|.+.|++||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            567777777777777777777777777777766

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.

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

Probab=98.35  E-value=0.00034  Score=57.50  Aligned_cols=168  Identities=12%  Similarity=0.169  Sum_probs=111.0

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 045379          126 IEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNP  205 (352)
Q Consensus       126 i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  205 (352)
                      +-.|...|+++.+......+..    |.        ..+...++.+++...++...+.. +.+...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCH
Confidence            4567788888776555433322    11        01112555666666666665553 56778888888888888888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHhcCC--HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 045379          206 QKAVEIFQRMKRDCCQPSTETYTLMINL-YGKASK--SFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIF  282 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~g~--~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~  282 (352)
                      ++|...|++..+.. +.+...+..+..+ +...|+  .++|.+++++..+.. +-+...+..+...+.+.|++++|...|
T Consensus        90 ~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         90 DNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            88888888887764 3366777777765 356676  488888888888764 335667788888888888888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHHHHH
Q 045379          283 EQLQGAGIEPDVYAYNALMEAYRLISRM  310 (352)
Q Consensus       283 ~~m~~~~~~p~~~~~~~li~a~~~~~~m  310 (352)
                      +++.+.. .|+..-+ .+|+.....+.|
T Consensus       168 ~~aL~l~-~~~~~r~-~~i~~i~~a~~~  193 (198)
T PRK10370        168 QKVLDLN-SPRVNRT-QLVESINMAKLL  193 (198)
T ss_pred             HHHHhhC-CCCccHH-HHHHHHHHHHHH
Confidence            8887653 3333333 333544444443

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.34  E-value=9.5e-07  Score=50.24  Aligned_cols=33  Identities=36%  Similarity=0.492  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 045379          226 TYTLMINLYGKASKSFMALKLFNEMRSHKCKPN  258 (352)
Q Consensus       226 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~  258 (352)
                      +||.+|.+|++.|++++|.++|++|.+.|++||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            344555555555555555555555544444444

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.

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

Probab=98.34  E-value=1.9e-05  Score=68.71  Aligned_cols=208  Identities=17%  Similarity=0.120  Sum_probs=114.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPP-SAVVYNSYIDGL  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~  199 (352)
                      .---+.+++.-.|+++.++   .++.... .|.......+...+...++-+.+..-+++.......+ +....-.....+
T Consensus        37 ~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~  112 (290)
T PF04733_consen   37 RDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATIL  112 (290)
T ss_dssp             HHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHH
Confidence            4455667777777766543   3333332 5666665555444443344444444443333333222 222333333455


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCH
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR----EGLC  275 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~----~g~~  275 (352)
                      ...|++++|++++.+-      .+....-..+..|.+.++++.|.+.++.|.+..  .| .+...+..++..    .+++
T Consensus       113 ~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e~~  183 (290)
T PF04733_consen  113 FHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGEKY  183 (290)
T ss_dssp             CCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTTCC
T ss_pred             HHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCchhH
Confidence            6678888888877653      256677777888888888888888888887652  33 344445554443    3367


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCc-chhHHHHH
Q 045379          276 EEAEEIFEQLQGAGIEPDVYAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLH-EGKCSYSL  342 (352)
Q Consensus       276 ~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~-~~A~~~~~  342 (352)
                      .+|..+|+++.+. ..+++.+.+.+..+..          ++.+.-..-+-+..+...+|-+....|+. +.+.+++.
T Consensus       184 ~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~  260 (290)
T PF04733_consen  184 QDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLS  260 (290)
T ss_dssp             CHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             HHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHH
Confidence            8888888887654 4456666665543333          33333112234566777777777777777 34445554

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.

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.30  E-value=0.00011  Score=62.18  Aligned_cols=169  Identities=14%  Similarity=0.018  Sum_probs=122.2

Q ss_pred             CcchhHHHHHHHHHhcCCHHHHHHHhcCCC---Cc-hhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHH
Q 045379           61 VLSPTAQQILRFVQREVDSNTIWDAFDSLP---PT-HATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHK  136 (352)
Q Consensus        61 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  136 (352)
                      ......-.+...+.+.|+++.|...|+++.   |+ .....                       ++..+...+.+.|+++
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~-----------------------a~~~la~~~~~~~~~~   87 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQ-----------------------AQLDLAYAYYKSGDYA   87 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHH-----------------------HHHHHHHHHHhcCCHH
Confidence            334466777888889999999999887653   22 11111                       4566678889999999


Q ss_pred             HHHHHHHHHHhCCCCCCH--HHHHHHHHHHHHc--------CCHHHHHHHHHHHHHCCCCCCHHHH--------------
Q 045379          137 KAEFTYLELLDSRCIPTE--DTYALLLKAYCMS--------GLLEKAEAVFREMRKYGLPPSAVVY--------------  192 (352)
Q Consensus       137 ~a~~l~~~m~~~~~~p~~--~~~~~li~~~~~~--------g~~~~a~~~~~~m~~~g~~~~~~~~--------------  192 (352)
                      +|...++++.+.......  .++..+-.++...        |++++|.+.++.+.+..- -+...+              
T Consensus        88 ~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~a~~~~~~~~~~~~  166 (235)
T TIGR03302        88 EAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYP-NSEYAPDAKKRMDYLRNRLA  166 (235)
T ss_pred             HHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCC-CChhHHHHHHHHHHHHHHHH
Confidence            999999999875532121  2455555556554        788999999999887532 121111              


Q ss_pred             ---HHHHHHHHcCCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          193 ---NSYIDGLLKGGNPQKAVEIFQRMKRDC--CQPSTETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       193 ---~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                         -.+...|.+.|++++|...+++..+..  .+.....+..+..++...|++++|...++.+...
T Consensus       167 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       167 GKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence               134567888999999999999998762  1234578999999999999999999999988754

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).

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

Probab=98.29  E-value=0.00021  Score=71.62  Aligned_cols=219  Identities=12%  Similarity=0.134  Sum_probs=165.4

Q ss_pred             cCcchhHHHHHHHHHhcCCHHHHHHHhcCCCC---------chhhHHHHHHHHHHHhhccCcchhhHHhH-------HHH
Q 045379           60 PVLSPTAQQILRFVQREVDSNTIWDAFDSLPP---------THATWDDLINVSVQLRLNKKWDPIVLMSC-------VSI  123 (352)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-------~~~  123 (352)
                      |-.+-.+-.-|......++++.|++++++..+         -...|.++++.-...|..+...++++...       +|.
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~ 1534 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHL 1534 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHH
Confidence            33333445557777788999999999987642         34578888888777776655555555444       888


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHH
Q 045379          124 LLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS---AVVYNSYIDGLL  200 (352)
Q Consensus       124 ~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~  200 (352)
                      .|...|.+.+.+++|.++|+.|.+. +.-....|...+..+.++.+-+.|..++.+..+.  -|.   .....-.+..-.
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEF 1611 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEF 1611 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHh
Confidence            9999999999999999999999964 2257779999999999999999999999998764  222   233444555566


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCCHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNI--CTYTALVNAFAREGLCEEA  278 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~--~t~~~li~~~~~~g~~~~a  278 (352)
                      +.|+.+.+..+|+.+...- +--...|+..|..-.++|+.+.+..+|++....++.|--  ..|..-+..=-..|+-+.+
T Consensus      1612 k~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~v 1690 (1710)
T KOG1070|consen 1612 KYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNV 1690 (1710)
T ss_pred             hcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhH
Confidence            8899999999999988763 335778999999999999999999999999998776654  2455555544455665444


Q ss_pred             HHHH
Q 045379          279 EEIF  282 (352)
Q Consensus       279 ~~l~  282 (352)
                      ..+=
T Consensus      1691 E~VK 1694 (1710)
T KOG1070|consen 1691 EYVK 1694 (1710)
T ss_pred             HHHH
Confidence            4443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.28  E-value=0.0003  Score=68.43  Aligned_cols=155  Identities=14%  Similarity=0.105  Sum_probs=104.8

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 045379          152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMI  231 (352)
Q Consensus       152 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  231 (352)
                      .++..+..|.....+.|+.++|+.+++...+.. +.+......+...+.+.+++++|...+++..... +-+....+.+-
T Consensus        84 ~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a  161 (694)
T PRK15179         84 HTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEA  161 (694)
T ss_pred             ccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHH
Confidence            457777777777778888888888887777752 3345566677777777888888888888777763 33455666777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH----HHHHHH
Q 045379          232 NLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALM----EAYRLI  307 (352)
Q Consensus       232 ~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li----~a~~~~  307 (352)
                      .++.+.|++++|..+|++.... .+-+..++..+-.++-..|+.++|...|++..+.. .|....|+..+    .-|..+
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~-~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~  239 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQ-HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRLVDLNADLAAL  239 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHHHHHHHHHHHH
Confidence            7777788888888888887763 23346677777777777888888888887776542 23334444443    233355


Q ss_pred             HHH
Q 045379          308 SRM  310 (352)
Q Consensus       308 ~~m  310 (352)
                      +.+
T Consensus       240 ~~~  242 (694)
T PRK15179        240 RRL  242 (694)
T ss_pred             HHc
Confidence            555

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

Probab=98.28  E-value=2e-05  Score=71.41  Aligned_cols=125  Identities=13%  Similarity=0.084  Sum_probs=89.4

Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHH
Q 045379          148 SRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY--GLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTE  225 (352)
Q Consensus       148 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  225 (352)
                      .+.+.+......+++.+.+..+.|++..++...+..  ....-..|..++++.|.+.|..+++..+++.=...|+-||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            344556667777777777777777777777777654  222223455678888888888888888888777788888888


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 045379          226 TYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFARE  272 (352)
Q Consensus       226 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~  272 (352)
                      ++|.||..+.+.|++..|.++..+|...+.-.+..|+...+.+|.+-
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            88888888888888888888887777666666666666666666554

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 [].

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.27  E-value=1.9e-06  Score=48.66  Aligned_cols=32  Identities=38%  Similarity=0.600  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPP  187 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~  187 (352)
                      +|+.+|.+|++.|+++.|.++|++|++.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            34444444444444444444444444444433

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

Probab=98.27  E-value=0.00033  Score=58.18  Aligned_cols=157  Identities=13%  Similarity=-0.033  Sum_probs=107.1

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 045379          126 IEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNP  205 (352)
Q Consensus       126 i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  205 (352)
                      -..+...|+-+....+........ +-|....+..+....+.|++.+|...+++.... -++|..+|+.+--+|.+.|+.
T Consensus        73 a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~  150 (257)
T COG5010          73 ATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRF  150 (257)
T ss_pred             HHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccCh
Confidence            344555666666666665544322 235556666777777888888888888777665 356777888888888888888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          206 QKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      +.|..-|.+..+-- .-+....|+|.-.+.-.|+.+.|..++......+ .-|...-..+.......|++++|..+..+-
T Consensus       151 ~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~~~e  228 (257)
T COG5010         151 DEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIAVQE  228 (257)
T ss_pred             hHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhcccc
Confidence            88888887777642 2245667777777777788888888887776653 235666677777777788888887776654


Q ss_pred             H
Q 045379          286 Q  286 (352)
Q Consensus       286 ~  286 (352)
                      .
T Consensus       229 ~  229 (257)
T COG5010         229 L  229 (257)
T ss_pred             c
Confidence            4

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.26  E-value=1.9e-06  Score=48.74  Aligned_cols=32  Identities=16%  Similarity=0.093  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIP  152 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p  152 (352)
                      +||++|.+|++.|+++.|.++|++|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            79999999999999999999999999999987

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

Probab=98.26  E-value=0.0019  Score=60.39  Aligned_cols=220  Identities=12%  Similarity=0.108  Sum_probs=148.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHcc
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQK  132 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~  132 (352)
                      ....-...|.+.+.++-|+.+|...    |.+...|......=-..|..+..+.++....        .|-....-+-..
T Consensus       518 tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pkae~lwlM~ake~w~a  597 (913)
T KOG0495|consen  518 TWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPKAEILWLMYAKEKWKA  597 (913)
T ss_pred             HHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCcchhHHHHHHHHHHhc
Confidence            6677788888999898888877543    3456667655554434444333333333222        677777778888


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHH
Q 045379          133 SLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIF  212 (352)
Q Consensus       133 g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~  212 (352)
                      |+...|..++....+.... +...|..-+..-....+++.|..+|.+....  .|+..+|.--++.-.-.+..++|.+++
T Consensus       598 gdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rll  674 (913)
T KOG0495|consen  598 GDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLL  674 (913)
T ss_pred             CCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHH
Confidence            9999999999888876543 6678888888888889999999998887664  567777776666667778888888888


Q ss_pred             HHHHHc---------------------------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 045379          213 QRMKRD---------------------------------CCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNI  259 (352)
Q Consensus       213 ~~m~~~---------------------------------~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~  259 (352)
                      ++-++.                                 .++-.+..|-.|...--+.|++-+|..+++.-.-.+ +-+.
T Consensus       675 Ee~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~  753 (913)
T KOG0495|consen  675 EEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNA  753 (913)
T ss_pred             HHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcc
Confidence            766543                                 122233344444444445556666666666655443 3455


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          260 CTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       260 ~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      ..|-..|..=.+.|+.+.|..+..+..+.
T Consensus       754 ~lwle~Ir~ElR~gn~~~a~~lmakALQe  782 (913)
T KOG0495|consen  754 LLWLESIRMELRAGNKEQAELLMAKALQE  782 (913)
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            66777777777888888887777766543

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

Probab=98.25  E-value=0.00019  Score=59.59  Aligned_cols=182  Identities=12%  Similarity=-0.000  Sum_probs=123.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCCHHH
Q 045379           66 AQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSLHKK  137 (352)
Q Consensus        66 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~~~  137 (352)
                      ...++.+....+-....-..+..-|.|... ...-..+...|+.+..-.+.....        .-+..+....+.|++.+
T Consensus        40 ~~~~~~~~q~~~a~~al~~~~~~~p~d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~  118 (257)
T COG5010          40 PESSLAMRQTQGAAAALGAAVLRNPEDLSI-AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGE  118 (257)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHhcCcchHHH-HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHH
Confidence            455555555554333334444444444444 333334444444433333332211        44557778888899999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 045379          138 AEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKR  217 (352)
Q Consensus       138 a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  217 (352)
                      |...+.+...-. ++|...|+.+--+|-+.|++++|..-|.+..+-. +-+....|.+.-.|.-.|+++.|..++.....
T Consensus       119 A~~~~rkA~~l~-p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l  196 (257)
T COG5010         119 AVSVLRKAARLA-PTDWEAWNLLGAALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYL  196 (257)
T ss_pred             HHHHHHHHhccC-CCChhhhhHHHHHHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHh
Confidence            999998887643 3678899999999999999999999988888753 23456778888888888999999999888877


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          218 DCCQPSTETYTLMINLYGKASKSFMALKLFNEMR  251 (352)
Q Consensus       218 ~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~  251 (352)
                      .+ .-|...-..+.-.....|++++|.++...-.
T Consensus       197 ~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~~~e~  229 (257)
T COG5010         197 SP-AADSRVRQNLALVVGLQGDFREAEDIAVQEL  229 (257)
T ss_pred             CC-CCchHHHHHHHHHHhhcCChHHHHhhccccc
Confidence            64 2367777888888889999999988776544

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

Probab=98.22  E-value=0.00016  Score=59.41  Aligned_cols=127  Identities=11%  Similarity=0.128  Sum_probs=101.9

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHcCCC--HHH
Q 045379          131 QKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDG-LLKGGN--PQK  207 (352)
Q Consensus       131 ~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~g~--~~~  207 (352)
                      ..++.+++...+....+... .|...|..+...|...|++++|...|++..+.. +.+...+..+..+ +...|+  .++
T Consensus        51 ~~~~~~~~i~~l~~~L~~~P-~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         51 SQQTPEAQLQALQDKIRANP-QNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             CchhHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHH
Confidence            35667788888877776553 478899999999999999999999999988864 4467777777776 467777  599


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 045379          208 AVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICT  261 (352)
Q Consensus       208 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t  261 (352)
                      |.+++++..+.. +-+..++..+...+.+.|++++|+..|+++.+.. +|+..-
T Consensus       129 A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~~r  180 (198)
T PRK10370        129 TREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDLN-SPRVNR  180 (198)
T ss_pred             HHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCccH
Confidence            999999998875 3377889999999999999999999999998764 444433

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.22  E-value=0.00026  Score=54.98  Aligned_cols=94  Identities=11%  Similarity=-0.120  Sum_probs=48.4

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 045379          157 YALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGK  236 (352)
Q Consensus       157 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  236 (352)
                      +......+...|++++|...|+...... +.+...+..+..++.+.|++++|...|++..+.. +.+...+..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            3334445555555555555555554442 2344555555555555555555555555555432 2344555555555555


Q ss_pred             cCCHHHHHHHHHHHHh
Q 045379          237 ASKSFMALKLFNEMRS  252 (352)
Q Consensus       237 ~g~~~~a~~l~~~m~~  252 (352)
                      .|++++|+..|+....
T Consensus       105 ~g~~~eAi~~~~~Al~  120 (144)
T PRK15359        105 MGEPGLAREAFQTAIK  120 (144)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555555544

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

Probab=98.18  E-value=0.00014  Score=65.29  Aligned_cols=225  Identities=16%  Similarity=0.077  Sum_probs=153.7

Q ss_pred             HHHhcCCHHHHHHHhcCCC---C-chhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCCHHHHH
Q 045379           72 FVQREVDSNTIWDAFDSLP---P-THATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSLHKKAE  139 (352)
Q Consensus        72 ~~~~~g~~~~A~~~~~~~~---~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~~~a~  139 (352)
                      ++.-+|+.-.|..-|+..-   | +...|--+...|....+....-..+....        +|.--...+.-.+++++|.
T Consensus       335 F~fL~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~  414 (606)
T KOG0547|consen  335 FHFLKGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAI  414 (606)
T ss_pred             hhhhcCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHH
Confidence            3344677777766666432   2 22225555555555544433333332222        7777777788888999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcC
Q 045379          140 FTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDC  219 (352)
Q Consensus       140 ~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  219 (352)
                      .=|++...-... +...|.-+--+.-++++++++...|++.+++ ++.-+.+|+.....+..++++++|.+.|+..++..
T Consensus       415 aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE  492 (606)
T KOG0547|consen  415 ADFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE  492 (606)
T ss_pred             HHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc
Confidence            999988874421 4557777777777899999999999998876 66677899999999999999999999999876631


Q ss_pred             -----C--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 045379          220 -----C--QPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEP  292 (352)
Q Consensus       220 -----~--~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p  292 (352)
                           +  .+.+.+.-.++..- -.+++..|++++++..+.. +-....|..|...-.+.|++++|.++|++-...    
T Consensus       493 ~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAielFEksa~l----  566 (606)
T KOG0547|consen  493 PREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIELFEKSAQL----  566 (606)
T ss_pred             cccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH----
Confidence                 1  11122222333222 3388999999999888753 223457889999999999999999999987532    


Q ss_pred             CHHHHHHHHHHHH
Q 045379          293 DVYAYNALMEAYR  305 (352)
Q Consensus       293 ~~~~~~~li~a~~  305 (352)
                       ..|-.-++.+|.
T Consensus       567 -Art~~E~~~a~s  578 (606)
T KOG0547|consen  567 -ARTESEMVHAYS  578 (606)
T ss_pred             -HHhHHHHHHHHH
Confidence             234455555655

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

Probab=98.18  E-value=0.00036  Score=65.68  Aligned_cols=262  Identities=13%  Similarity=0.047  Sum_probs=145.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhH-------HHHHHHHHHHccCCHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSC-------VSILLIEAYGQKSLHKK  137 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-------~~~~li~~~~~~g~~~~  137 (352)
                      ....+...+.+.|...+|..+|+++    ..|.-.+-+|...|+.++++.+.....       .|..+.+.....-.+++
T Consensus       400 ~q~~laell~slGitksAl~I~Erl----emw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yEk  475 (777)
T KOG1128|consen  400 LQRLLAELLLSLGITKSALVIFERL----EMWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYEK  475 (777)
T ss_pred             HHHHHHHHHHHcchHHHHHHHHHhH----HHHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHHH
Confidence            4467777888888888888888865    334444444444444333333332211       33333333333333444


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 045379          138 AEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKR  217 (352)
Q Consensus       138 a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  217 (352)
                      |.++.+....+       .-..+-....++++++++.+.|+.-.+.. +.-..+|-.+-.++.+.++++.|.+.|..-..
T Consensus       476 awElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvt  547 (777)
T KOG1128|consen  476 AWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT  547 (777)
T ss_pred             HHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhh
Confidence            44443333221       00000000111344444444444433321 12345566666667777888888888887665


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHH
Q 045379          218 DCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA-GIEPDVYA  296 (352)
Q Consensus       218 ~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~-~~~p~~~~  296 (352)
                      -. +-+...||++-.+|.+.++-.+|...+.+..+.+ .-+...|.+.+....+.|.+++|.+.+.++.+. ....|...
T Consensus       548 L~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~~v  625 (777)
T KOG1128|consen  548 LE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEV  625 (777)
T ss_pred             cC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcccchh
Confidence            41 3356788999999999999999999888888766 444556777788888889999999888888653 11225455


Q ss_pred             HHHHHHHHHHHHHH-----hcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          297 YNALMEAYRLISRM-----HMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       297 ~~~li~a~~~~~~m-----~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ...++...  .+.+     +....|....-..+.....+.++-.+..+++.
T Consensus       626 l~~iv~~~--~~~~~d~s~de~~~~k~~~kelmg~~~~qv~~s~~~wrL~a  674 (777)
T KOG1128|consen  626 LLIIVRTV--LEGMTDESGDEATGLKGKLKELLGKVLSQVTNSPETWRLYA  674 (777)
T ss_pred             hHHHHHHH--HhhccccccchhhhhhHHHHHHHHHHHHHHhCchhhhHhHh
Confidence            44444333  2333     11111111222445555666666556555543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.17  E-value=0.00025  Score=55.12  Aligned_cols=100  Identities=10%  Similarity=-0.074  Sum_probs=86.7

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFA  270 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~  270 (352)
                      .+..+...+...|++++|...|+...... +.+...|..+..++...|++++|+..|+...... +.+...+..+..++.
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-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLK  103 (144)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            35566778899999999999999998874 4578899999999999999999999999999764 557788999999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCH
Q 045379          271 REGLCEEAEEIFEQLQGAGIEPDV  294 (352)
Q Consensus       271 ~~g~~~~a~~l~~~m~~~~~~p~~  294 (352)
                      ..|+.++|...|....+.  .|+.
T Consensus       104 ~~g~~~eAi~~~~~Al~~--~p~~  125 (144)
T PRK15359        104 MMGEPGLAREAFQTAIKM--SYAD  125 (144)
T ss_pred             HcCCHHHHHHHHHHHHHh--CCCC
Confidence            999999999999999865  4543

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

Probab=98.14  E-value=0.0016  Score=64.50  Aligned_cols=223  Identities=11%  Similarity=0.054  Sum_probs=154.6

Q ss_pred             ccCcCcCcchhHHHHHHHHHhcCCHHHHHHHhcCCC---Cchh-hHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHH
Q 045379           55 VDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLP---PTHA-TWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYG  130 (352)
Q Consensus        55 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~-~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~  130 (352)
                      .+...|.-......|+..|...+++++|.++.+...   |+.. -|-.+...+.+.++...+.       .. .+++...
T Consensus        23 ~~~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~-------lv-~~l~~~~   94 (906)
T PRK14720         23 ANNYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSN-------LL-NLIDSFS   94 (906)
T ss_pred             cccCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhh-------hh-hhhhhcc
Confidence            455566666688999999999999999998886432   4433 3333333444444422221       11 6777777


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHH
Q 045379          131 QKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVE  210 (352)
Q Consensus       131 ~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  210 (352)
                      ...++.-+.-+...|.+.+  -+...+-.+..+|-+.|+.+++..+|+++.+.. +-|..+.|.+...|+.. ++++|.+
T Consensus        95 ~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~  170 (906)
T PRK14720         95 QNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAIT  170 (906)
T ss_pred             cccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHH
Confidence            7888866666667776643  345588889999999999999999999999887 67888999999999999 9999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-------------------CCCCCHHHHHHHHHHHHh
Q 045379          211 IFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH-------------------KCKPNICTYTALVNAFAR  271 (352)
Q Consensus       211 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~-------------------g~~p~~~t~~~li~~~~~  271 (352)
                      ++.+..+.               |...+++..+.+++.++...                   |..--..++-.+-..|-.
T Consensus       171 m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~  235 (906)
T PRK14720        171 YLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKA  235 (906)
T ss_pred             HHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhh
Confidence            99887764               33333444444444444332                   223334456666678888


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          272 EGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR  305 (352)
Q Consensus       272 ~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~  305 (352)
                      .++|+++.++++.+.+..- -|.....-++..|.
T Consensus       236 ~~~~~~~i~iLK~iL~~~~-~n~~a~~~l~~~y~  268 (906)
T PRK14720        236 LEDWDEVIYILKKILEHDN-KNNKAREELIRFYK  268 (906)
T ss_pred             hhhhhHHHHHHHHHHhcCC-cchhhHHHHHHHHH
Confidence            8899999999999987642 24555666666665

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

Probab=98.14  E-value=0.0043  Score=58.01  Aligned_cols=40  Identities=8%  Similarity=0.062  Sum_probs=29.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCCC---chhhHHHHHHHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLPP---THATWDDLINVSV  104 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~l~~~~~  104 (352)
                      ...+|++.|.+.|.+++|..+|++--.   ++.-|+.+.++|+
T Consensus       250 Lw~SLAdYYIr~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya  292 (835)
T KOG2047|consen  250 LWCSLADYYIRSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYA  292 (835)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHhheehhhHHHHHHHHH
Confidence            569999999999999999999986542   3333444445444

>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=98.12  E-value=0.00037  Score=62.95  Aligned_cols=124  Identities=16%  Similarity=0.175  Sum_probs=99.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYG  235 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  235 (352)
                      ....++..+...++++.|..+++++.+..  |+  ....+++.+...++-.+|.+++++..+.. +-+......-...+.
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            44566777777889999999999998875  44  44457888888888889999998887652 346667777778888


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          236 KASKSFMALKLFNEMRSHKCKPNI-CTYTALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       236 ~~g~~~~a~~l~~~m~~~g~~p~~-~t~~~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                      +.++++.|+++.++....  .|+. .+|..|..+|.+.|+++.|+..++.+-
T Consensus       246 ~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            999999999999998875  4555 489999999999999999999888774

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

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

Probab=98.10  E-value=0.00029  Score=53.98  Aligned_cols=94  Identities=11%  Similarity=0.040  Sum_probs=49.1

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 045379          192 YNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR  271 (352)
Q Consensus       192 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~  271 (352)
                      ...+...+...|++++|...|+...+.+ +.+...+..+...+...|++++|...++...+.+ +.+...+..+...|..
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~   97 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLA   97 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHH
Confidence            3444445555555555555555554432 2344555555555555555555555555554432 2334445555555555


Q ss_pred             cCCHHHHHHHHHHHHH
Q 045379          272 EGLCEEAEEIFEQLQG  287 (352)
Q Consensus       272 ~g~~~~a~~l~~~m~~  287 (352)
                      .|++++|...|+...+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        98 LGEPESALKALDLAIE  113 (135)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555555554

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

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

Probab=98.09  E-value=0.00038  Score=57.96  Aligned_cols=148  Identities=16%  Similarity=0.094  Sum_probs=73.7

Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----cCC
Q 045379          128 AYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL----KGG  203 (352)
Q Consensus       128 ~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~----~~g  203 (352)
                      .|...|++++|++.....      -+......=.....+..++|.|.+.+++|.+..   +..|.+-|..++.    ..+
T Consensus       117 i~~~~~~~deAl~~~~~~------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~gge  187 (299)
T KOG3081|consen  117 IYMHDGDFDEALKALHLG------ENLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGGE  187 (299)
T ss_pred             HhhcCCChHHHHHHHhcc------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccch
Confidence            355566666666555541      122222222333445556666666666665532   3344443333333    234


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHH
Q 045379          204 NPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLC-EEAEEIF  282 (352)
Q Consensus       204 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~-~~a~~l~  282 (352)
                      .+.+|.-+|++|.++ .+|+..+.|....++...|++++|+.++++......+ +..|...+|-.-...|.- +-..+.+
T Consensus       188 k~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l  265 (299)
T KOG3081|consen  188 KIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERNL  265 (299)
T ss_pred             hhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHHH
Confidence            466666666666553 2556666666666666666666666666666554322 334444444333333332 3334444


Q ss_pred             HHHH
Q 045379          283 EQLQ  286 (352)
Q Consensus       283 ~~m~  286 (352)
                      .+++
T Consensus       266 ~QLk  269 (299)
T KOG3081|consen  266 SQLK  269 (299)
T ss_pred             HHHH
Confidence            4444

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

Probab=98.08  E-value=7.1e-05  Score=53.88  Aligned_cols=76  Identities=12%  Similarity=0.246  Sum_probs=48.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHHCCCCCCHHHHHH
Q 045379          229 LMINLYGKASKSFMALKLFNEMRSHKC-KPNICTYTALVNAFAREG--------LCEEAEEIFEQLQGAGIEPDVYAYNA  299 (352)
Q Consensus       229 ~li~~~~~~g~~~~a~~l~~~m~~~g~-~p~~~t~~~li~~~~~~g--------~~~~a~~l~~~m~~~~~~p~~~~~~~  299 (352)
                      ..|..+...+++.....+|+.++..|+ .|+..+|+.++.+.++..        ++-..+.+|+.|...+++|+..||+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            345555555777777777777777777 677777777777766532        23345666666666666666666666


Q ss_pred             HHHHH
Q 045379          300 LMEAY  304 (352)
Q Consensus       300 li~a~  304 (352)
                      ++..+
T Consensus       110 vl~~L  114 (120)
T PF08579_consen  110 VLGSL  114 (120)
T ss_pred             HHHHH
Confidence            66543

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=98.08  E-value=8.4e-05  Score=53.50  Aligned_cols=81  Identities=22%  Similarity=0.280  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHcCC--------HHHHHHHHHHHHHCCCCCCHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRC-IPTEDTYALLLKAYCMSGL--------LEKAEAVFREMRKYGLPPSAVV  191 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~-~p~~~~~~~li~~~~~~g~--------~~~a~~~~~~m~~~g~~~~~~~  191 (352)
                      +-...|..+...+++.....+|..++..|+ .|+..+|+.++.+.++..-        .-..+.+|++|...+++|+..|
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            445567777777999999999999999998 8999999999998887542        3456677788887788888888


Q ss_pred             HHHHHHHHHc
Q 045379          192 YNSYIDGLLK  201 (352)
Q Consensus       192 ~~~li~~~~~  201 (352)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            8887776654

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 [, , ].

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

Probab=98.06  E-value=0.0015  Score=54.45  Aligned_cols=140  Identities=19%  Similarity=0.114  Sum_probs=107.7

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcC
Q 045379          140 FTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDC  219 (352)
Q Consensus       140 ~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  219 (352)
                      ++.+.+.......+......-...|+..|++++|++..+..      -+......=+..+.+..+.+.|.+.+++|.+- 
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i-  166 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG------ENLEAAALNVQILLKMHRFDLAEKELKKMQQI-  166 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-
Confidence            34445555544445455555567788999999999998772      13345555555677888999999999999975 


Q ss_pred             CCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 045379          220 CQPSTETYTLMINLYGK----ASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAG  289 (352)
Q Consensus       220 ~~~~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~  289 (352)
                        .+..|.+.|.++|.+    .+.+.+|.-+|++|.++ ..|+..+.+....++...|++++|..+++...+..
T Consensus       167 --ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd  237 (299)
T KOG3081|consen  167 --DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD  237 (299)
T ss_pred             --chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence              256677777777664    46689999999999864 57999999999999999999999999999998764

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

Probab=98.05  E-value=0.00039  Score=53.23  Aligned_cols=104  Identities=11%  Similarity=0.006  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 045379          154 EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINL  233 (352)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  233 (352)
                      ......+...+...|++++|...++...+.+ +.+...+..+...+.+.|++++|...+++..+.+ +.+...+..+...
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~   94 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAEC   94 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHH
Confidence            3456666677777888888888888877654 4466777777888888888888888888776653 4456677777778


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 045379          234 YGKASKSFMALKLFNEMRSHKCKPNICT  261 (352)
Q Consensus       234 ~~~~g~~~~a~~l~~~m~~~g~~p~~~t  261 (352)
                      |...|++++|...|+...+.  .|+...
T Consensus        95 ~~~~g~~~~A~~~~~~al~~--~p~~~~  120 (135)
T TIGR02552        95 LLALGEPESALKALDLAIEI--CGENPE  120 (135)
T ss_pred             HHHcCCHHHHHHHHHHHHHh--ccccch
Confidence            88888888888888877764  344433

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

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

Probab=98.05  E-value=6.3e-06  Score=45.35  Aligned_cols=30  Identities=17%  Similarity=0.117  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCC
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRC  150 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~  150 (352)
                      +||++|++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            567777777777777777777777776653

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.

>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=98.03  E-value=0.00026  Score=63.99  Aligned_cols=124  Identities=20%  Similarity=0.132  Sum_probs=104.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .-.+|+..+...++++.|..+|+++.+..  |+  ....+...+...++-.+|.+++++..+. .+-+..........+.
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--VAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHH
Confidence            44566777888899999999999999865  55  4455788888889999999999998865 3456777888888899


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPS-TETYTLMINLYGKASKSFMALKLFNEMR  251 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~l~~~m~  251 (352)
                      +.++++.|..+.++..+.  .|+ -.+|..|..+|...|++++|+..+..+.
T Consensus       246 ~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            999999999999999986  454 5699999999999999999999998875

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=98.03  E-value=0.0001  Score=66.89  Aligned_cols=123  Identities=9%  Similarity=0.129  Sum_probs=106.3

Q ss_pred             CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 045379          183 YGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD--CCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNIC  260 (352)
Q Consensus       183 ~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~  260 (352)
                      .+.+.+......+++.+....+++.+..++.+++..  ....-..|..++|..|.+.|..++++.++..=...|+=||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            355667788888999999999999999999998875  222234566799999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          261 TYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR  305 (352)
Q Consensus       261 t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~  305 (352)
                      ++|.||..+.+.|++..|.++...|...+.-.+..|+...+.+|.
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~  184 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCY  184 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHH
Confidence            999999999999999999999999988877777788877776665

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 [].

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

Probab=98.03  E-value=0.00059  Score=53.07  Aligned_cols=125  Identities=17%  Similarity=0.086  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIP--TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSA--VVYNSYI  196 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~--~~~~~li  196 (352)
                      .|..++..+ ..++...+.+.++.+.+....-  .....-.+...+...|++++|...|+........|+.  ...-.+.
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHH
Confidence            344444444 2555555555555555433211  0122223334555555666666655555554422211  1222344


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 045379          197 DGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFN  248 (352)
Q Consensus       197 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~  248 (352)
                      ..+...|++++|...++.....  ......+...-..|.+.|++++|...|+
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~  142 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQ  142 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            4555555555555555443222  1223344445555555555555555554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.02  E-value=0.00084  Score=65.43  Aligned_cols=141  Identities=13%  Similarity=0.083  Sum_probs=117.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT-EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      .+-.|.....+.|++++|..+++...+..  |+ ......+..++.+.+++++|....++..... +-+......+..++
T Consensus        88 ~~~~La~i~~~~g~~~ea~~~l~~~~~~~--Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a~~l  164 (694)
T PRK15179         88 FQVLVARALEAAHRSDEGLAVWRGIHQRF--PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEAKSW  164 (694)
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHhhC--CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHHHHH
Confidence            77888899999999999999999998843  65 4478889999999999999999999998874 45667788888899


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALV  266 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li  266 (352)
                      .+.|++++|..+|++.... .+-+..++..+-.++-..|+.++|...|+...+.- .|...-|+..+
T Consensus       165 ~~~g~~~~A~~~y~~~~~~-~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~  229 (694)
T PRK15179        165 DEIGQSEQADACFERLSRQ-HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRL  229 (694)
T ss_pred             HHhcchHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHH
Confidence            9999999999999999984 34458899999999999999999999999987642 34445555443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.02  E-value=0.00066  Score=58.83  Aligned_cols=244  Identities=13%  Similarity=0.100  Sum_probs=154.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCCCc-hhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLPPT-HATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYL  143 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~  143 (352)
                      ..-.|+-.|-+++++++|..+...+.|. +.-|  ++.+.                 ++.++..-.+.....+-|.+.|.
T Consensus       287 ARlNL~iYyL~q~dVqeA~~L~Kdl~PttP~Ey--ilKgv-----------------v~aalGQe~gSreHlKiAqqffq  347 (557)
T KOG3785|consen  287 ARLNLIIYYLNQNDVQEAISLCKDLDPTTPYEY--ILKGV-----------------VFAALGQETGSREHLKIAQQFFQ  347 (557)
T ss_pred             hhhhheeeecccccHHHHHHHHhhcCCCChHHH--HHHHH-----------------HHHHhhhhcCcHHHHHHHHHHHH
Confidence            3456777888999999999999988753 3333  34432                 22222233333444556667676


Q ss_pred             HHHhCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC
Q 045379          144 ELLDSRCIPTED-TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQP  222 (352)
Q Consensus       144 ~m~~~~~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  222 (352)
                      ..-+++..-|.. --.++.+++.-..++|+++-.++..+..=...|..-+ .+..+++..|.+.+|+++|-+.....++-
T Consensus       348 lVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ikn  426 (557)
T KOG3785|consen  348 LVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIKN  426 (557)
T ss_pred             HhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhhh
Confidence            555555443332 3344555566667788888888777765433343433 46778888999999999998876655443


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 045379          223 STETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTY-TALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALM  301 (352)
Q Consensus       223 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~-~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li  301 (352)
                      +..-...|..+|.++++++.|++++-.+..   +.+..+. ..+.+-|-+.+++--|.+.|+.+...  .|+++.|.-=-
T Consensus       427 ~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l--DP~pEnWeGKR  501 (557)
T KOG3785|consen  427 KILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEIL--DPTPENWEGKR  501 (557)
T ss_pred             hHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc--CCCccccCCcc
Confidence            333345567888999999999887766643   2233333 34456788888888888888888754  67777777666


Q ss_pred             HHHH-HHHHH--hcCCCCCHHHHHHHHHHHHHcCC
Q 045379          302 EAYR-LISRM--HMGCEPDRASYNIMVDAYGRAGL  333 (352)
Q Consensus       302 ~a~~-~~~~m--~~~~~p~~~~~~~li~a~~~~g~  333 (352)
                      -||+ +|..+  ...-+.......-++..+...++
T Consensus       502 GACaG~f~~l~~~~~~~~p~~~~rEVvhllr~~~n  536 (557)
T KOG3785|consen  502 GACAGLFRQLANHKTDPIPISQMREVVHLLRMKPN  536 (557)
T ss_pred             chHHHHHHHHHcCCCCCCchhHHHHHHHHHHhCCC
Confidence            6666 67766  22222234445555555555444

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

Probab=98.00  E-value=0.00087  Score=52.13  Aligned_cols=126  Identities=17%  Similarity=0.171  Sum_probs=93.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCH--HHHHHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS---AVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPST--ETYTLM  230 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~--~~~~~l  230 (352)
                      .|..++..+ ..++.+.+...++.+.+.. +.+   ....-.+...+...|++++|...|+...+....|+.  ...-.|
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            445555555 4899999999999998863 223   223334557888999999999999999987633332  244557


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          231 INLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       231 i~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      ...+...|++++|+..++.....  ......+...-..|.+.|++++|...|+..
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            88899999999999999775443  234456777888999999999999999864

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

Probab=97.97  E-value=1.1e-05  Score=44.35  Aligned_cols=27  Identities=37%  Similarity=0.532  Sum_probs=11.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          227 YTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       227 ~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      ||.+|++|++.|++++|.++|++|.+.
T Consensus         3 y~~li~~~~~~~~~~~a~~~~~~M~~~   29 (31)
T PF01535_consen    3 YNSLISGYCKMGQFEEALEVFDEMRER   29 (31)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHhHC
Confidence            444444444444444444444444433

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.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.96  E-value=0.00047  Score=65.06  Aligned_cols=113  Identities=23%  Similarity=0.303  Sum_probs=74.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 045379          160 LLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASK  239 (352)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  239 (352)
                      .+.+.....+|..|+.+++.++.+..  -..-|..+...|+..|+++.|+++|-+--         .++-.|..|.+.|+
T Consensus       738 aieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~k  806 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGK  806 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhcccc
Confidence            45666777788888888887776643  22456677777888888888888775432         35566777888888


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          240 SFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       240 ~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      |+.|.++-++...  -+.....|-+-..-.-++|++.+|.++|-.+
T Consensus       807 w~da~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti  850 (1636)
T KOG3616|consen  807 WEDAFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITI  850 (1636)
T ss_pred             HHHHHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEc
Confidence            8888877766542  2334445555555556667777766666433

>PLN02789 farnesyltranstransferase

Probab=97.94  E-value=0.0074  Score=53.42  Aligned_cols=212  Identities=8%  Similarity=-0.030  Sum_probs=133.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhcCCC-CchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccC-CHHHHHHHHH
Q 045379           66 AQQILRFVQREVDSNTIWDAFDSLP-PTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKS-LHKKAEFTYL  143 (352)
Q Consensus        66 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~l~~  143 (352)
                      +.-+-..+...+..++|+.+.+++- .++..++                       +|+.--..+...| ++++++..++
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~lnP~~yt-----------------------aW~~R~~iL~~L~~~l~eeL~~~~   96 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIRLNPGNYT-----------------------VWHFRRLCLEALDADLEEELDFAE   96 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHCchhHH-----------------------HHHHHHHHHHHcchhHHHHHHHHH
Confidence            3455556666777788877776543 1222221                       3333333444455 5788999998


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCC
Q 045379          144 ELLDSRCIPTEDTYALLLKAYCMSGLL--EKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQ  221 (352)
Q Consensus       144 ~m~~~~~~p~~~~~~~li~~~~~~g~~--~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  221 (352)
                      ++.+...+ +..+|+..-..+.+.|+.  +.+..+++.+.+.. +-|..+|+.....+...|+++++++.++++++.+..
T Consensus        97 ~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~  174 (320)
T PLN02789         97 DVAEDNPK-NYQIWHHRRWLAEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR  174 (320)
T ss_pred             HHHHHCCc-chHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC
Confidence            88876543 455676655555566653  67788888887764 456788888888888889999999999999887643


Q ss_pred             CCHHHHHHHHHHHHhc---CCH----HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHCCC
Q 045379          222 PSTETYTLMINLYGKA---SKS----FMALKLFNEMRSHKCKPNICTYTALVNAFARE----GLCEEAEEIFEQLQGAGI  290 (352)
Q Consensus       222 ~~~~~~~~li~~~~~~---g~~----~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~----g~~~~a~~l~~~m~~~~~  290 (352)
                       +..+|+.....+.+.   |..    +++++...+..... +-|...|+.+...+...    ++..+|...+.+..+.+ 
T Consensus       175 -N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-  251 (320)
T PLN02789        175 -NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-  251 (320)
T ss_pred             -chhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-
Confidence             667777766555544   222    35566665555442 34566777777777663    34456777777765532 


Q ss_pred             CCCHHHHHHHHHHHH
Q 045379          291 EPDVYAYNALMEAYR  305 (352)
Q Consensus       291 ~p~~~~~~~li~a~~  305 (352)
                      ..+......|++.|+
T Consensus       252 ~~s~~al~~l~d~~~  266 (320)
T PLN02789        252 SNHVFALSDLLDLLC  266 (320)
T ss_pred             CCcHHHHHHHHHHHH
Confidence            234444555555554

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

Probab=97.91  E-value=0.0033  Score=62.33  Aligned_cols=194  Identities=12%  Similarity=0.117  Sum_probs=111.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHHcCCHHHHHHH------------------HHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTED-TYALLLKAYCMSGLLEKAEAV------------------FREMR  181 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~-~~~~li~~~~~~g~~~~a~~~------------------~~~m~  181 (352)
                      .|..|+..+...+++++|.++.+.-.+..  |+.. .|-.+...+.+.++.+++..+                  ...|.
T Consensus        33 a~~~Li~~~~~~~~~deai~i~~~~l~~~--P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~~~i~  110 (906)
T PRK14720         33 ELDDLIDAYKSENLTDEAKDICEEHLKEH--KKSISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHICDKIL  110 (906)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CcceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhHHHHHHHHHH
Confidence            77889999999999999999998766643  4433 333333356666665555444                  11111


Q ss_pred             HCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 045379          182 KYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICT  261 (352)
Q Consensus       182 ~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t  261 (352)
                      +.  .-+...+-.+..+|-+.|+.++|..+++++.+.. +-|+.+.|.+...|... ++++|++++.+....        
T Consensus       111 ~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~--------  178 (906)
T PRK14720        111 LY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR--------  178 (906)
T ss_pred             hh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH--------
Confidence            11  1122344455556666666666666666666654 33556666666666666 666666665555432        


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH--hcCCCCCHHHHHHHHHHHHHcCCcchhHH
Q 045379          262 YTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRM--HMGCEPDRASYNIMVDAYGRAGLHEGKCS  339 (352)
Q Consensus       262 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m--~~~~~p~~~~~~~li~a~~~~g~~~~A~~  339 (352)
                             |...+++..+.+++.++...  .|+...+  ++.   +.+.+  ..++.--..++.-+-..|...++|+++..
T Consensus       179 -------~i~~kq~~~~~e~W~k~~~~--~~~d~d~--f~~---i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~  244 (906)
T PRK14720        179 -------FIKKKQYVGIEEIWSKLVHY--NSDDFDF--FLR---IERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIY  244 (906)
T ss_pred             -------HHhhhcchHHHHHHHHHHhc--CcccchH--HHH---HHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHH
Confidence                   44445555555655555543  1221111  110   22333  22445566677777778888888888888


Q ss_pred             HHH
Q 045379          340 YSL  342 (352)
Q Consensus       340 ~~~  342 (352)
                      +|.
T Consensus       245 iLK  247 (906)
T PRK14720        245 ILK  247 (906)
T ss_pred             HHH
Confidence            875

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

Probab=97.90  E-value=0.0037  Score=60.03  Aligned_cols=204  Identities=12%  Similarity=0.050  Sum_probs=101.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhcCCC------------Cch-hhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHH
Q 045379           64 PTAQQILRFVQREVDSNTIWDAFDSLP------------PTH-ATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYG  130 (352)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~~------------~~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~  130 (352)
                      .+...++.+|.+..+++-|.-.+..|.            .|. .+-.-..-...+.|..+++..++..+.-|..|=..|-
T Consensus       758 ~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvLAieLgMlEeA~~lYr~ckR~DLlNKlyQ  837 (1416)
T KOG3617|consen  758 SVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVLAIELGMLEEALILYRQCKRYDLLNKLYQ  837 (1416)
T ss_pred             HHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            355666666666666666655555542            111 1111112223345566666666666666666666666


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH----------CC---------CCCCHHH
Q 045379          131 QKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRK----------YG---------LPPSAVV  191 (352)
Q Consensus       131 ~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----------~g---------~~~~~~~  191 (352)
                      ..|.|++|.++-+.=-.-.   -..||..-..-+-..++.+.|++.|+....          ..         -..+...
T Consensus       838 s~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L  914 (1416)
T KOG3617|consen  838 SQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESL  914 (1416)
T ss_pred             hcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHH
Confidence            6777777776654322211   122444444444445666666665554211          00         0122334


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 045379          192 YNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR  271 (352)
Q Consensus       192 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~  271 (352)
                      |...-...-..|..+.|+.+|...++         |-.++...|-+|+.++|-++-++-      -|....-.|.+.|..
T Consensus       915 ~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn  979 (1416)
T KOG3617|consen  915 YSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMYEN  979 (1416)
T ss_pred             HHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHhhh
Confidence            44444444456666666666655442         223333334444444444433321      244445555666666


Q ss_pred             cCCHHHHHHHHHHH
Q 045379          272 EGLCEEAEEIFEQL  285 (352)
Q Consensus       272 ~g~~~~a~~l~~~m  285 (352)
                      .|++.+|...|.+.
T Consensus       980 ~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  980 DGDVVKAVKFFTRA  993 (1416)
T ss_pred             hHHHHHHHHHHHHH
Confidence            66666666666554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.90  E-value=0.0048  Score=63.17  Aligned_cols=24  Identities=13%  Similarity=0.112  Sum_probs=17.6

Q ss_pred             HHHHHHHHHHHHcCCcchhHHHHH
Q 045379          319 ASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       319 ~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .+...+..++.+.|+.++|.+.+.
T Consensus       732 ~~~~~la~a~~~~G~~~~A~~~L~  755 (903)
T PRK04841        732 RNLILLNQLYWQQGRKSEAQRVLL  755 (903)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHH
Confidence            345566677888888888888764

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

Probab=97.90  E-value=0.0016  Score=59.90  Aligned_cols=185  Identities=11%  Similarity=0.059  Sum_probs=108.3

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHH
Q 045379          129 YGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKA  208 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a  208 (352)
                      +.+.|++.+|.-.|+...+..+. +...|.-|-.+-+..++-..|+..+.+..+.. +-|....-.|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHH
Confidence            34455666666666555554321 34455555555555555555555555555432 22334444444444444444444


Q ss_pred             HHHHHHHH------------------------------------------HcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 045379          209 VEIFQRMK------------------------------------------RDCCQPSTETYTLMINLYGKASKSFMALKL  246 (352)
Q Consensus       209 ~~~~~~m~------------------------------------------~~~~~~~~~~~~~li~~~~~~g~~~~a~~l  246 (352)
                      .+.++.-+                                          +.+..+|......|--.|--.|++++|.+.
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            44443332                                          233335556666666666677777777777


Q ss_pred             HHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 045379          247 FNEMRSHKCKP-NICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMV  325 (352)
Q Consensus       247 ~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li  325 (352)
                      |+.....  +| |...||.|-.+++...+.++|...|.+..+.  .|+                       =..+...|.
T Consensus       453 f~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~-----------------------yVR~RyNlg  505 (579)
T KOG1125|consen  453 FEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPG-----------------------YVRVRYNLG  505 (579)
T ss_pred             HHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCC-----------------------eeeeehhhh
Confidence            7766653  33 4456777777777777777777777777653  222                       244556777


Q ss_pred             HHHHHcCCcchhHHHHH
Q 045379          326 DAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       326 ~a~~~~g~~~~A~~~~~  342 (352)
                      -+|...|.++||.+.|.
T Consensus       506 IS~mNlG~ykEA~~hlL  522 (579)
T KOG1125|consen  506 ISCMNLGAYKEAVKHLL  522 (579)
T ss_pred             hhhhhhhhHHHHHHHHH
Confidence            78888888888888885

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

Probab=97.89  E-value=0.0035  Score=56.68  Aligned_cols=138  Identities=17%  Similarity=0.158  Sum_probs=71.2

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHcCCCHHH
Q 045379          129 YGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS-AVVYNSYIDGLLKGGNPQK  207 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~  207 (352)
                      +...|++++|+..++.+.... +-|+.-+......+.+.++.++|.+.++.+...  .|+ ....-.+..+|.+.|++++
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHH
Confidence            334555555666555555432 123334444445555566666666666555553  222 3444455555555666666


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          208 AVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       208 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      |..+++...... +-|...|..|-.+|...|+..++..-..+                  .|...|+++.|...+....+
T Consensus       393 ai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~  453 (484)
T COG4783         393 AIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRASQ  453 (484)
T ss_pred             HHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHH
Confidence            666655554432 33555566666666665555555443332                  23345566666666655554


Q ss_pred             C
Q 045379          288 A  288 (352)
Q Consensus       288 ~  288 (352)
                      .
T Consensus       454 ~  454 (484)
T COG4783         454 Q  454 (484)
T ss_pred             h
Confidence            3

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.89  E-value=0.01  Score=51.73  Aligned_cols=116  Identities=11%  Similarity=0.021  Sum_probs=64.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhcCCC----CchhhHHHHHHHHHHHhhccCcchhhHHhH---------------------
Q 045379           66 AQQILRFVQREVDSNTIWDAFDSLP----PTHATWDDLINVSVQLRLNKKWDPIVLMSC---------------------  120 (352)
Q Consensus        66 ~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---------------------  120 (352)
                      .-=+...|.+.|++++|...+.-+.    ++...|-.+.-+..-.|...++..+...+.                     
T Consensus        60 ~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k~pL~~RLlfhlahklndEk~  139 (557)
T KOG3785|consen   60 QLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKR  139 (557)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCcHHH
Confidence            3445566668889999888776442    344444444333333333333333222111                     


Q ss_pred             -------------HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHHcCCHHHHHHHHHHHHHC
Q 045379          121 -------------VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLK-AYCMSGLLEKAEAVFREMRKY  183 (352)
Q Consensus       121 -------------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~-~~~~~g~~~~a~~~~~~m~~~  183 (352)
                                   ---+|.+...-.-.+++|+++|......+  |.-...|.-+. +|.+..-++-+.++++...+.
T Consensus       140 ~~~fh~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn--~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q  214 (557)
T KOG3785|consen  140 ILTFHSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQDN--PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ  214 (557)
T ss_pred             HHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh
Confidence                         12233344334456888999998888644  55556665444 455666677777777665543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.87  E-value=0.0069  Score=50.30  Aligned_cols=84  Identities=13%  Similarity=0.156  Sum_probs=38.0

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 045379          167 SGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKL  246 (352)
Q Consensus       167 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l  246 (352)
                      .|++++|.++++.+.+.+ +.|.+++---+...-.+|+--+|++-+....+. +..|...|.-+-..|...|++++|.-.
T Consensus        99 ~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fC  176 (289)
T KOG3060|consen   99 TGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFC  176 (289)
T ss_pred             hhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHH
Confidence            344444444444444443 233333433333333344444444444444333 233455555555555555555555555


Q ss_pred             HHHHHh
Q 045379          247 FNEMRS  252 (352)
Q Consensus       247 ~~~m~~  252 (352)
                      ++++.-
T Consensus       177 lEE~ll  182 (289)
T KOG3060|consen  177 LEELLL  182 (289)
T ss_pred             HHHHHH
Confidence            555543

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

Probab=97.85  E-value=0.011  Score=54.79  Aligned_cols=113  Identities=10%  Similarity=-0.023  Sum_probs=65.5

Q ss_pred             HHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH---HHHHH----HHHHHccCCHH
Q 045379           68 QILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC---VSILL----IEAYGQKSLHK  136 (352)
Q Consensus        68 ~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~l----i~~~~~~g~~~  136 (352)
                      +=++.+.+.|++++|.+.-.++    |.+...+..=+-+..+.++.+.+..+.+...   +++..    .-+..+.+..+
T Consensus        17 t~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrlnk~D   96 (652)
T KOG2376|consen   17 TDLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAYCEYRLNKLD   96 (652)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHHcccHH
Confidence            3356667888888887666554    3333333333333334444433333222211   23333    23345678888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 045379          137 KAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG  184 (352)
Q Consensus       137 ~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  184 (352)
                      +|+..++-...    .|..+...-...|.+.|++++|.++|..+.+.+
T Consensus        97 ealk~~~~~~~----~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~  140 (652)
T KOG2376|consen   97 EALKTLKGLDR----LDDKLLELRAQVLYRLERYDEALDIYQHLAKNN  140 (652)
T ss_pred             HHHHHHhcccc----cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            88888872222    234466667778888999999999998886554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.84  E-value=0.014  Score=59.87  Aligned_cols=224  Identities=8%  Similarity=-0.142  Sum_probs=128.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHH---HhhccCcchhhHHhH---------HHHHHHHHHHc
Q 045379           64 PTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQ---LRLNKKWDPIVLMSC---------VSILLIEAYGQ  131 (352)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~~~~~~~~~~---------~~~~li~~~~~  131 (352)
                      ..+......+...|++.+|.......+........+......   .++.......+....         ........+..
T Consensus       342 ~lh~raa~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~  421 (903)
T PRK04841        342 ELHRAAAEAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQS  421 (903)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHH
Confidence            355666777888899888887777665332222222221111   111111111111110         11233344556


Q ss_pred             cCCHHHHHHHHHHHHhCCC------CCCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHH
Q 045379          132 KSLHKKAEFTYLELLDSRC------IPTED--TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS----AVVYNSYIDGL  199 (352)
Q Consensus       132 ~g~~~~a~~l~~~m~~~~~------~p~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~  199 (352)
                      .|+++++..++....+.--      .|...  ....+-..+...|++++|...+++..+.--..+    ....+.+...+
T Consensus       422 ~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~  501 (903)
T PRK04841        422 QHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVH  501 (903)
T ss_pred             CCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHH
Confidence            7889999888887654210      11111  222233455678899999998888765311111    13345566667


Q ss_pred             HcCCCHHHHHHHHHHHHHc----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCC--C-CHHHHHHHHH
Q 045379          200 LKGGNPQKAVEIFQRMKRD----CC-QPSTETYTLMINLYGKASKSFMALKLFNEMRS----HKCK--P-NICTYTALVN  267 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~----~~-~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~----~g~~--p-~~~t~~~li~  267 (352)
                      ...|++++|...+++....    |- .+...+...+...+...|++++|...+++...    .+..  + ....+..+..
T Consensus       502 ~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~  581 (903)
T PRK04841        502 HCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQ  581 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHH
Confidence            7889999999888877642    11 11123455667778888999999888877644    2211  1 2233445556


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 045379          268 AFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       268 ~~~~~g~~~~a~~l~~~m~~  287 (352)
                      .+...|++++|...+.+...
T Consensus       582 ~~~~~G~~~~A~~~~~~al~  601 (903)
T PRK04841        582 LLWEWARLDEAEQCARKGLE  601 (903)
T ss_pred             HHHHhcCHHHHHHHHHHhHH
Confidence            66778999999988887754

>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=97.82  E-value=0.00047  Score=55.97  Aligned_cols=88  Identities=22%  Similarity=0.462  Sum_probs=56.6

Q ss_pred             CCHHHHHHHHHHHHH-----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC----------------CCHHHHHH
Q 045379          152 PTEDTYALLLKAYCM-----SGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKG----------------GNPQKAVE  210 (352)
Q Consensus       152 p~~~~~~~li~~~~~-----~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~----------------g~~~~a~~  210 (352)
                      .|..+|..+++.+.+     .|..+-....++.|.+-|+.-|..+|+.||+.+=+.                .+-+-|.+
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~  124 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAID  124 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHH
Confidence            455666666666653     356666666777777777777777777777765542                12345666


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 045379          211 IFQRMKRDCCQPSTETYTLMINLYGKASK  239 (352)
Q Consensus       211 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~  239 (352)
                      ++++|...|+.||..++..|++.+++.+.
T Consensus       125 lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  125 LLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            66666666666666666666666666555

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

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.82  E-value=0.0013  Score=48.82  Aligned_cols=97  Identities=15%  Similarity=0.021  Sum_probs=53.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHH
Q 045379          122 SILLIEAYGQKSLHKKAEFTYLELLDSRCI--PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG--LPPSAVVYNSYID  197 (352)
Q Consensus       122 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~~~~~~~~~li~  197 (352)
                      +..+...+.+.|++++|.+.|..+.+....  .....+..+..++.+.|++++|...++.+....  .+.....+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            344455566666666666666666543211  113345556666666666666666666665431  1112344555555


Q ss_pred             HHHcCCCHHHHHHHHHHHHHc
Q 045379          198 GLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       198 ~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      ++.+.|++++|...++++.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            566666666666666666554

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.

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

Probab=97.78  E-value=0.024  Score=53.19  Aligned_cols=275  Identities=11%  Similarity=0.089  Sum_probs=158.4

Q ss_pred             cccccccCcCcCcchhHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhh----------HHh
Q 045379           50 YGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIV----------LMS  119 (352)
Q Consensus        50 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~----------~~~  119 (352)
                      .+..-+.+. +.+.|++.++=+.      ++++...+.+||   ..|-..+......++..+....+          ...
T Consensus        69 ~R~~~vk~~-~~T~~~~~~vn~c------~er~lv~mHkmp---RIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~  138 (835)
T KOG2047|consen   69 ARRAQVKHL-CPTDPAYESVNNC------FERCLVFMHKMP---RIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHD  138 (835)
T ss_pred             HHHHHhhcc-CCCChHHHHHHHH------HHHHHHHHhcCC---HHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhc
Confidence            343333333 3456666554333      466666777775   33444444443333332222222          222


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------CCCCCHHHHH
Q 045379          120 CVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY------GLPPSAVVYN  193 (352)
Q Consensus       120 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~~~~~~~~  193 (352)
                      .+|...+......|-++-+.++|++.++    .++..-..-|..++..+++++|-+.+......      ..+.+-..|.
T Consensus       139 rIW~lyl~Fv~~~~lPets~rvyrRYLk----~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~  214 (835)
T KOG2047|consen  139 RIWDLYLKFVESHGLPETSIRVYRRYLK----VAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWL  214 (835)
T ss_pred             cchHHHHHHHHhCCChHHHHHHHHHHHh----cCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHH
Confidence            2888888888888888999999998887    45666788888889999999998888776532      2344556666


Q ss_pred             HHHHHHHcCCCHHH---HHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 045379          194 SYIDGLLKGGNPQK---AVEIFQRMKRDCCQPST--ETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNA  268 (352)
Q Consensus       194 ~li~~~~~~g~~~~---a~~~~~~m~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~  268 (352)
                      .+.+..++..+.-.   ...+++.+...  -+|.  ..|+.|..-|.+.|.+++|..++++-...  ..+..-|..+.++
T Consensus       215 elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~  290 (835)
T KOG2047|consen  215 ELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDA  290 (835)
T ss_pred             HHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHH
Confidence            66666665544322   33444444433  3333  46788888888888888888888876654  2344445555555


Q ss_pred             HHhcCC----------------------HHHHHHHHHHHHHCC-----------CCCCHHHHHHHHHHHH--------HH
Q 045379          269 FAREGL----------------------CEEAEEIFEQLQGAG-----------IEPDVYAYNALMEAYR--------LI  307 (352)
Q Consensus       269 ~~~~g~----------------------~~~a~~l~~~m~~~~-----------~~p~~~~~~~li~a~~--------~~  307 (352)
                      |+.-..                      ++-.+.-|+.+.+.+           -.-++.+|..-+..+.        .+
T Consensus       291 Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l~e~~~~~~i~ty  370 (835)
T KOG2047|consen  291 YAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKLYEGNAAEQINTY  370 (835)
T ss_pred             HHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhhhcCChHHHHHHH
Confidence            543211                      222333333333221           0112233333222211        33


Q ss_pred             HHHhcCCCC------CHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          308 SRMHMGCEP------DRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       308 ~~m~~~~~p------~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .+.-..+.|      -...|..+.+-|-.+|+++.|..+|.
T Consensus       371 teAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvife  411 (835)
T KOG2047|consen  371 TEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFE  411 (835)
T ss_pred             HHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHH
Confidence            333222222      23458888999999999999999986

>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=97.76  E-value=0.00071  Score=54.95  Aligned_cols=50  Identities=12%  Similarity=0.248  Sum_probs=29.9

Q ss_pred             CCHHHHHHHHHHHHcC-----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 045379          187 PSAVVYNSYIDGLLKG-----GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGK  236 (352)
Q Consensus       187 ~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  236 (352)
                      .|..+|..+++.|.+.     |..+=....+..|.+-|+.-|..+|+.|+..+=+
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            4556666666666543     4455555566666666666666666666665543

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

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

Probab=97.75  E-value=0.00079  Score=46.98  Aligned_cols=91  Identities=22%  Similarity=0.194  Sum_probs=49.3

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 045379          194 SYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREG  273 (352)
Q Consensus       194 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g  273 (352)
                      .+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.++...... +.+..++..+...+...|
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHH
Confidence            34444555566666666666555432 2223445555555666666666666666555432 223345555556666666


Q ss_pred             CHHHHHHHHHHHH
Q 045379          274 LCEEAEEIFEQLQ  286 (352)
Q Consensus       274 ~~~~a~~l~~~m~  286 (352)
                      ++++|...+....
T Consensus        83 ~~~~a~~~~~~~~   95 (100)
T cd00189          83 KYEEALEAYEKAL   95 (100)
T ss_pred             hHHHHHHHHHHHH
Confidence            6666666665554

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

Probab=97.75  E-value=0.042  Score=52.65  Aligned_cols=114  Identities=17%  Similarity=0.099  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHH
Q 045379          226 TYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDV-YAYNALMEAY  304 (352)
Q Consensus       226 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~-~~~~~li~a~  304 (352)
                      .|......+.+.+..++|...+.+.... .......|...-..+...|++++|.+.|......  .|+. ...+++-..+
T Consensus       652 lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~l--dP~hv~s~~Ala~~l  728 (799)
T KOG4162|consen  652 LWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALAL--DPDHVPSMTALAELL  728 (799)
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhc--CCCCcHHHHHHHHHH
Confidence            3567788888999999999888887654 2445566777778888999999999999988754  3332 3344444444


Q ss_pred             H------------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          305 R------------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       305 ~------------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .            ++..+-+--+.+...|..+...+-+.|+.++|.+.|.
T Consensus       729 le~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~  778 (799)
T KOG4162|consen  729 LELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQ  778 (799)
T ss_pred             HHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHH
Confidence            3            4444433336689999999999999999999999996

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

Probab=97.74  E-value=0.00087  Score=61.57  Aligned_cols=211  Identities=15%  Similarity=0.091  Sum_probs=154.8

Q ss_pred             HHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCCHHHH
Q 045379           71 RFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSLHKKA  138 (352)
Q Consensus        71 ~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~~~a  138 (352)
                      .-+-+.|++.+|.-.|+.-    |.+...|--|.-.-....+...+..++..|.        +.-+|.-.|...|.-.+|
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHH
Confidence            3345788999998888753    3577889888888777776666666666555        777888889999999999


Q ss_pred             HHHHHHHHhCCCC--------CCHHHHHHHHHHHHHcCCHHHHHHHHHHH-HHCCCCCCHHHHHHHHHHHHcCCCHHHHH
Q 045379          139 EFTYLELLDSRCI--------PTEDTYALLLKAYCMSGLLEKAEAVFREM-RKYGLPPSAVVYNSYIDGLLKGGNPQKAV  209 (352)
Q Consensus       139 ~~l~~~m~~~~~~--------p~~~~~~~li~~~~~~g~~~~a~~~~~~m-~~~g~~~~~~~~~~li~~~~~~g~~~~a~  209 (352)
                      ++.++.-....++        ++...-..  ........+....++|-++ .+.+..+|..+...|--.|--.|.+++|.
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            9999877653321        00000000  1111222334455555554 44555678888888888899999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          210 EIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN-ICTYTALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       210 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                      +.|+..+... +-|...||-|-.+++...+.++|+..+.+..+.  +|+ ++....|.-+|...|.+++|...|-...
T Consensus       451 Dcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  451 DCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            9999988763 447789999999999999999999999999876  565 3466677778999999999999887764

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

Probab=97.72  E-value=0.0059  Score=57.86  Aligned_cols=113  Identities=12%  Similarity=0.004  Sum_probs=64.3

Q ss_pred             CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHH
Q 045379          202 GGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN-ICTYTALVNAFAREGLCEEAEE  280 (352)
Q Consensus       202 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~  280 (352)
                      .++++++.+.|+.-.+.+ +.-..+|-.+-.+..+.++++.|.+.|......  .|| ...||++-.+|.+.|+..+|..
T Consensus       498 ~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~  574 (777)
T KOG1128|consen  498 NKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFR  574 (777)
T ss_pred             chhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHH
Confidence            344555555554433322 223445555555555555566555555555432  233 3346666666666666666655


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          281 IFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       281 l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .+++..+-+                         .-+...|.+-+....+-|.+++|.+.+.
T Consensus       575 ~l~EAlKcn-------------------------~~~w~iWENymlvsvdvge~eda~~A~~  611 (777)
T KOG1128|consen  575 KLKEALKCN-------------------------YQHWQIWENYMLVSVDVGEFEDAIKAYH  611 (777)
T ss_pred             HHHHHhhcC-------------------------CCCCeeeechhhhhhhcccHHHHHHHHH
Confidence            555554332                         3356667777788888899999888876

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.72  E-value=0.0062  Score=51.79  Aligned_cols=165  Identities=12%  Similarity=0.056  Sum_probs=100.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHH
Q 045379          122 SILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNS-YIDGLL  200 (352)
Q Consensus       122 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~-li~~~~  200 (352)
                      +.+.+..+.+-.++.+|++++..-.++.. .+....+.+-.+|-...++..|-..++++...  -|...-|.. -...+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p-~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSP-RSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHH
Confidence            34455556666777777777766665542 25566666777777777777777777776553  233333321 122333


Q ss_pred             cCCCHHHHHHHHHHHHHc------------------C-C------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRD------------------C-C------------QPSTETYTLMINLYGKASKSFMALKLFNE  249 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~------------------~-~------------~~~~~~~~~li~~~~~~g~~~~a~~l~~~  249 (352)
                      +.+.+.+|.++...|.+.                  + +            .-+..+.+..-....+.|+++.|.+-|+.
T Consensus        90 ~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqa  169 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQA  169 (459)
T ss_pred             HhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHH
Confidence            445555555555444321                  0 0            11333444444455678999999999998


Q ss_pred             HHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 045379          250 MRSH-KCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIE  291 (352)
Q Consensus       250 m~~~-g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~  291 (352)
                      ..+- |.. ....||..+..| +.|+++.|++...++.++|++
T Consensus       170 AlqvsGyq-pllAYniALaHy-~~~qyasALk~iSEIieRG~r  210 (459)
T KOG4340|consen  170 ALQVSGYQ-PLLAYNLALAHY-SSRQYASALKHISEIIERGIR  210 (459)
T ss_pred             HHhhcCCC-chhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhh
Confidence            8764 444 445677766655 568999999999999888764

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

Probab=97.72  E-value=0.0012  Score=63.17  Aligned_cols=130  Identities=15%  Similarity=0.179  Sum_probs=61.7

Q ss_pred             HHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhH-----------------HHHHHHHHHHccCC
Q 045379           72 FVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSC-----------------VSILLIEAYGQKSL  134 (352)
Q Consensus        72 ~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-----------------~~~~li~~~~~~g~  134 (352)
                      +|..-|+.+.|.+-.+.+ ++-..|..|.+.|.+.++.+-+.-.+..+.                 .=..+.-.-...|.
T Consensus       737 fyvtiG~MD~AfksI~~I-kS~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvLAieLgM  815 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFI-KSDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVLAIELGM  815 (1416)
T ss_pred             EEEEeccHHHHHHHHHHH-hhhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHHHHHHhh
Confidence            345567777766655544 344567777776666554432222211111                 11111112234455


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHH
Q 045379          135 HKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQR  214 (352)
Q Consensus       135 ~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  214 (352)
                      .++|+.+|.+...         |..+=..|...|.|++|.++-+.--...++   .||-.-...+-..++.+.|++.|++
T Consensus       816 lEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr---~Tyy~yA~~Lear~Di~~AleyyEK  883 (1416)
T KOG3617|consen  816 LEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIHLR---NTYYNYAKYLEARRDIEAALEYYEK  883 (1416)
T ss_pred             HHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhccceehh---hhHHHHHHHHHhhccHHHHHHHHHh
Confidence            5666666655544         223334455566666666654432222222   3344444444445556666555543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.72  E-value=0.0025  Score=47.29  Aligned_cols=94  Identities=17%  Similarity=0.071  Sum_probs=38.7

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHH
Q 045379          195 YIDGLLKGGNPQKAVEIFQRMKRDCC--QPSTETYTLMINLYGKASKSFMALKLFNEMRSHK--CKPNICTYTALVNAFA  270 (352)
Q Consensus       195 li~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g--~~p~~~t~~~li~~~~  270 (352)
                      +...+.+.|++++|...|+++.+..-  +.....+..+..++.+.|++++|.+.|+.+....  .......+..+..++.
T Consensus         8 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~   87 (119)
T TIGR02795         8 AALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQ   87 (119)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHH
Confidence            33344444444444444444443210  0012233334444444445555555444444321  0111233444444444


Q ss_pred             hcCCHHHHHHHHHHHHHC
Q 045379          271 REGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       271 ~~g~~~~a~~l~~~m~~~  288 (352)
                      +.|+.++|...++++.+.
T Consensus        88 ~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        88 ELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HhCChHHHHHHHHHHHHH
Confidence            455555555555544443

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.

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

Probab=97.70  E-value=0.0023  Score=57.83  Aligned_cols=118  Identities=16%  Similarity=0.128  Sum_probs=79.0

Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHH
Q 045379          166 MSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPS-TETYTLMINLYGKASKSFMAL  244 (352)
Q Consensus       166 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~a~  244 (352)
                      ..|+++.|+..++.+.+. .+-|..-.......+.+.++..+|.+.++.+...  .|+ ....-.+-.++.+.|++.+|+
T Consensus       318 ~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai  394 (484)
T COG4783         318 LAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAI  394 (484)
T ss_pred             HhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHH
Confidence            456667777777776554 3445555556666777777777777777777765  344 445556667777777777777


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          245 KLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       245 ~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      .+++..... .+-|+..|..|..+|...|+..++..-..+...
T Consensus       395 ~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~  436 (484)
T COG4783         395 RILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAEGYA  436 (484)
T ss_pred             HHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            777776644 255666777777777777777777777666543

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

Probab=97.68  E-value=0.0011  Score=46.19  Aligned_cols=93  Identities=22%  Similarity=0.185  Sum_probs=43.5

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 045379          122 SILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK  201 (352)
Q Consensus       122 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  201 (352)
                      |..+...+...|++++|...+.+..+... .+...+..+...+...|++++|.+.++...+.. +.+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            34444555555555555555555544321 122344444455555555555555555544432 1222344444444444


Q ss_pred             CCCHHHHHHHHHHHH
Q 045379          202 GGNPQKAVEIFQRMK  216 (352)
Q Consensus       202 ~g~~~~a~~~~~~m~  216 (352)
                      .|+++.|...+....
T Consensus        81 ~~~~~~a~~~~~~~~   95 (100)
T cd00189          81 LGKYEEALEAYEKAL   95 (100)
T ss_pred             HHhHHHHHHHHHHHH
Confidence            455555554444443

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

Probab=97.67  E-value=0.038  Score=49.32  Aligned_cols=273  Identities=12%  Similarity=0.063  Sum_probs=137.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCCCchhh--HHHHHHHHHHHhhccCcchhhHHhH------HHHHHHHHHHccCCHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLPPTHAT--WDDLINVSVQLRLNKKWDPIVLMSC------VSILLIEAYGQKSLHK  136 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~~~~~~~~~~------~~~~li~~~~~~g~~~  136 (352)
                      .-...+..|.-.|+-++|..++.+.|+...+  -|.|+.-+-+.|-.. .++++..+.      .--..|.+..+.+ +.
T Consensus        99 ~~r~~aecy~~~~n~~~Ai~~l~~~p~t~r~p~inlMla~l~~~g~r~-~~~vl~ykevvrecp~aL~~i~~ll~l~-v~  176 (564)
T KOG1174|consen   99 QRRRAAECYRQIGNTDMAIETLLQVPPTLRSPRINLMLARLQHHGSRH-KEAVLAYKEVIRECPMALQVIEALLELG-VN  176 (564)
T ss_pred             HHHHHHHHHHHHccchHHHHHHhcCCccccchhHHHHHHHHHhccccc-cHHHHhhhHHHHhcchHHHHHHHHHHHh-hc
Confidence            3456788888889999999999999865433  233333333333222 243333222      0011111111110 00


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHH--cCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHH
Q 045379          137 KAEFTYLELLDSRCIPTEDTYALLLKAYCM--SGLLEKAEAVFREMRK-YGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQ  213 (352)
Q Consensus       137 ~a~~l~~~m~~~~~~p~~~~~~~li~~~~~--~g~~~~a~~~~~~m~~-~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~  213 (352)
                      .+..-=..|-...+.|...+...-+.+++.  .++...+...+-.+.. .-++.|+.....+.+.+...|+.++|+..|+
T Consensus       177 g~e~~S~~m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe  256 (564)
T KOG1174|consen  177 GNEINSLVMHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFS  256 (564)
T ss_pred             chhhhhhhhhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHH
Confidence            011111122222233433344444444433  3444444444433332 2356677778888888888888888888888


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CC
Q 045379          214 RMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAG--IE  291 (352)
Q Consensus       214 ~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~--~~  291 (352)
                      +....+ +.++.....-.-.+.+.|+++....+...+.... +-+...|-.-.......++++.|+.+-.+..+..  ..
T Consensus       257 ~~~~~d-py~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~  334 (564)
T KOG1174|consen  257 STLCAN-PDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNH  334 (564)
T ss_pred             HHhhCC-hhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccc
Confidence            877542 1122222222333456677777777776665431 1233334433444445667777777776665431  11


Q ss_pred             CCHHH-HHHHHH------HHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHH
Q 045379          292 PDVYA-YNALME------AYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYS  341 (352)
Q Consensus       292 p~~~~-~~~li~------a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~  341 (352)
                      |-... -+.|+.      |-.-|+....--+.+..+|.-|+..|...|+++||.-+-
T Consensus       335 ~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~A  391 (564)
T KOG1174|consen  335 EALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALA  391 (564)
T ss_pred             hHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHH
Confidence            11111 111111      111333332223457788888888888888888887553

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.67  E-value=0.024  Score=47.17  Aligned_cols=162  Identities=20%  Similarity=0.123  Sum_probs=119.8

Q ss_pred             ccCCHHHHHHHHHHHHh---CC-CCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 045379          131 QKSLHKKAEFTYLELLD---SR-CIPTED-TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNP  205 (352)
Q Consensus       131 ~~g~~~~a~~l~~~m~~---~~-~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  205 (352)
                      ...+.++..+++.++..   .| ..|+.. .|-.++-+....|+.+.|..+++++..+- +-+..+-..-.-.+-..|++
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            45677888888888873   34 556666 56677778888999999999999988763 33333322222234457899


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          206 QKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      ++|+++++.+.+.. +.|..++--=+...-..|+.-+|++-+.+..+. +..|...|.-+-..|...|++++|.-.++++
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-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            99999999998876 556667766666777778888888888887765 4568899999999999999999999999998


Q ss_pred             HHCCCCCCHHHH
Q 045379          286 QGAGIEPDVYAY  297 (352)
Q Consensus       286 ~~~~~~p~~~~~  297 (352)
                      .-.  .|....|
T Consensus       181 ll~--~P~n~l~  190 (289)
T KOG3060|consen  181 LLI--QPFNPLY  190 (289)
T ss_pred             HHc--CCCcHHH
Confidence            754  4544333

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

Probab=97.65  E-value=0.0017  Score=56.55  Aligned_cols=130  Identities=15%  Similarity=0.134  Sum_probs=91.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKA-YCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~-~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      +|..++...-+.+..+.|..+|.+.++.+. .+...|...... +...++.+.|.++|+...+. ++.+...|..-++.+
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 VWIQYMRFMRRTEGIEAARKVFKRARKDKR-CTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            577788888888888899999988885432 233444444333 22356677789999888775 556777888888888


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPS---TETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      .+.++.+.|..+|++.... +.++   ...|...+..-.+.|+++.+.++.+++.+.
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            8888899999999888765 2222   247888888888888888888888887664

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.

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

Probab=97.63  E-value=0.033  Score=49.27  Aligned_cols=106  Identities=19%  Similarity=0.193  Sum_probs=64.0

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFA  270 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~  270 (352)
                      +.+..|.-+...|+...|.++-.+.+    .|+..-|..-+.+++..++|++-.++...      +-++..|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            34444555556666666666655554    45666666667777777777666554321      123355666666676


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHH
Q 045379          271 REGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSY  340 (352)
Q Consensus       271 ~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~  340 (352)
                      +.|+..+|..+..++.                                  +..-+..|.++|++.+|.+.
T Consensus       249 ~~~~~~eA~~yI~k~~----------------------------------~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  249 KYGNKKEASKYIPKIP----------------------------------DEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HCCCHHHHHHHHHhCC----------------------------------hHHHHHHHHHCCCHHHHHHH
Confidence            7777666666665521                                  14556677777777777665

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

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

Probab=97.54  E-value=0.00017  Score=50.25  Aligned_cols=79  Identities=20%  Similarity=0.193  Sum_probs=34.1

Q ss_pred             CCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 045379          133 SLHKKAEFTYLELLDSRCI-PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEI  211 (352)
Q Consensus       133 g~~~~a~~l~~~m~~~~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  211 (352)
                      |+++.|+.+++++.+.... |+...+..+..++.+.|++++|..+++. .+.+. .+....-.+..+|.+.|++++|..+
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            4555555555555543321 1233333345555555555555555554 11111 1112222334455555555555555


Q ss_pred             HH
Q 045379          212 FQ  213 (352)
Q Consensus       212 ~~  213 (352)
                      |+
T Consensus        81 l~   82 (84)
T PF12895_consen   81 LE   82 (84)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

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

Probab=97.53  E-value=0.066  Score=48.69  Aligned_cols=160  Identities=14%  Similarity=0.133  Sum_probs=90.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSA-VVYNSYIDGL  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~  199 (352)
                      .|-.....=..++++..|..+|+..++... .+...|.--+.+=.++..+..|..+++.....  -|-+ ..|--.+.+=
T Consensus        75 ~WikYaqwEesq~e~~RARSv~ERALdvd~-r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymE  151 (677)
T KOG1915|consen   75 VWIKYAQWEESQKEIQRARSVFERALDVDY-RNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYME  151 (677)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHhccc-ccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHH
Confidence            444444444455666677777776665442 35556666666666666666666666666543  1211 2222233333


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  279 (352)
                      -..|++..|.++|++-.+-  .|+..+|++.|+.-.+.+.++.|..+++...-.  .|+..+|-....-=.+.|++..|.
T Consensus       152 E~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  152 EMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             HHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHH
Confidence            3456666666666665554  566666666666666666666666666665532  366666655555555556665555


Q ss_pred             HHHHHHHH
Q 045379          280 EIFEQLQG  287 (352)
Q Consensus       280 ~l~~~m~~  287 (352)
                      .+|....+
T Consensus       228 ~VyerAie  235 (677)
T KOG1915|consen  228 SVYERAIE  235 (677)
T ss_pred             HHHHHHHH
Confidence            55555543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.52  E-value=0.0071  Score=48.49  Aligned_cols=88  Identities=16%  Similarity=0.033  Sum_probs=61.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT--EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDG  198 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  198 (352)
                      .+..+...+...|++++|...|++..+....+.  ...+..+..++.+.|++++|...+.+..+.. +.+...+..+...
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~  115 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            566677778888888888888888876543332  3577778888888888888888888877652 2345566666667


Q ss_pred             HHcCCCHHHHH
Q 045379          199 LLKGGNPQKAV  209 (352)
Q Consensus       199 ~~~~g~~~~a~  209 (352)
                      |...|+...+.
T Consensus       116 ~~~~g~~~~a~  126 (172)
T PRK02603        116 YHKRGEKAEEA  126 (172)
T ss_pred             HHHcCChHhHh
Confidence            77766654443

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

Probab=97.50  E-value=0.00036  Score=48.63  Aligned_cols=80  Identities=19%  Similarity=0.213  Sum_probs=39.6

Q ss_pred             CCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHH
Q 045379          202 GGNPQKAVEIFQRMKRDCCQ-PSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN-ICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       202 ~g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~  279 (352)
                      +|+++.|..+++++.+..-. ++...+-.+..+|.+.|++++|+.+++. .+.  .|+ ....-.+..+|.+.|++++|.
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~--~~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKL--DPSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTH--HHCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCC--CCCCHHHHHHHHHHHHHhCCHHHHH
Confidence            35566666666666554211 1233344456666666666666666655 211  121 223333355566666666666


Q ss_pred             HHHHH
Q 045379          280 EIFEQ  284 (352)
Q Consensus       280 ~l~~~  284 (352)
                      +++.+
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            66554

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.48  E-value=0.0017  Score=61.50  Aligned_cols=160  Identities=12%  Similarity=0.053  Sum_probs=86.2

Q ss_pred             hcCCHHHHHHHhcCCC-Cc--hhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 045379           75 REVDSNTIWDAFDSLP-PT--HATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCI  151 (352)
Q Consensus        75 ~~g~~~~A~~~~~~~~-~~--~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~  151 (352)
                      ....|.+|+.+++.++ ++  ..-|.-+...|+..|+.+.+++++.....++-.|.+|.+.|+|..|.++-.+..  |..
T Consensus       744 ~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~~~~dai~my~k~~kw~da~kla~e~~--~~e  821 (1636)
T KOG3616|consen  744 GAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEADLFKDAIDMYGKAGKWEDAFKLAEECH--GPE  821 (1636)
T ss_pred             hhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcchhHHHHHHHhccccHHHHHHHHHHhc--Cch
Confidence            3445556666666554 22  223555555666666666666666666667777777777777777777655443  333


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 045379          152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMI  231 (352)
Q Consensus       152 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  231 (352)
                      .+...|..-..-.-..|++.+|+++|-....    |+     ..|.+|-+.|..++..++.++-....   -..|.-.+.
T Consensus       822 ~t~~~yiakaedldehgkf~eaeqlyiti~~----p~-----~aiqmydk~~~~ddmirlv~k~h~d~---l~dt~~~f~  889 (1636)
T KOG3616|consen  822 ATISLYIAKAEDLDEHGKFAEAEQLYITIGE----PD-----KAIQMYDKHGLDDDMIRLVEKHHGDH---LHDTHKHFA  889 (1636)
T ss_pred             hHHHHHHHhHHhHHhhcchhhhhheeEEccC----ch-----HHHHHHHhhCcchHHHHHHHHhChhh---hhHHHHHHH
Confidence            4444555555555566666666665533211    21     23445555565555555554432211   112333444


Q ss_pred             HHHHhcCCHHHHHHHHH
Q 045379          232 NLYGKASKSFMALKLFN  248 (352)
Q Consensus       232 ~~~~~~g~~~~a~~l~~  248 (352)
                      .-|-..|++..|+.-|-
T Consensus       890 ~e~e~~g~lkaae~~fl  906 (1636)
T KOG3616|consen  890 KELEAEGDLKAAEEHFL  906 (1636)
T ss_pred             HHHHhccChhHHHHHHH
Confidence            45555555555555443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.47  E-value=0.0035  Score=50.05  Aligned_cols=81  Identities=14%  Similarity=0.016  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 045379          154 EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPP--SAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMI  231 (352)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  231 (352)
                      ...|..+...+...|++++|...|++.......+  ...++..+...|...|++++|...+++..+.. +....+++.+.
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            3345555556666666666666666665442111  22456666666666666666666666665431 22234444555


Q ss_pred             HHHH
Q 045379          232 NLYG  235 (352)
Q Consensus       232 ~~~~  235 (352)
                      ..+.
T Consensus       114 ~i~~  117 (168)
T CHL00033        114 VICH  117 (168)
T ss_pred             HHHH
Confidence            4554

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

Probab=97.47  E-value=0.0085  Score=52.16  Aligned_cols=145  Identities=17%  Similarity=0.191  Sum_probs=108.1

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 045379          155 DTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDG-LLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINL  233 (352)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  233 (352)
                      .+|..+|...-+.+..+.|..+|.+.++.+. .+..+|-..... |...++.+.|.++|+...+. ++.+...|..-+..
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            4788899999999999999999999986532 233444444444 44467788899999998875 56678889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          234 YGKASKSFMALKLFNEMRSHKCKPNI----CTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR  305 (352)
Q Consensus       234 ~~~~g~~~~a~~l~~~m~~~g~~p~~----~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~  305 (352)
                      +...|+.+.|..+|+.....  .|..    ..|...+..=.+.|+++.+..+.+++.+.  .|+......+++-|.
T Consensus        80 l~~~~d~~~aR~lfer~i~~--l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry~  151 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS--LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRYS  151 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT--SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT-
T ss_pred             HHHhCcHHHHHHHHHHHHHh--cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHhh
Confidence            99999999999999999865  3333    48999999999999999999999998864  555555555554443

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.

>PLN02789 farnesyltranstransferase

Probab=97.45  E-value=0.073  Score=47.19  Aligned_cols=206  Identities=8%  Similarity=-0.025  Sum_probs=137.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSG-LLEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      ++..+-..+...++.++|+.++.++.+.... +..+|+.--.++...| ++++++..++++.+.. +.+..+|+..-..+
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            4555556677889999999999999985422 3446666666666777 6799999999998764 34445677655555


Q ss_pred             HcCCC--HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CC
Q 045379          200 LKGGN--PQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFARE---GL  274 (352)
Q Consensus       200 ~~~g~--~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~---g~  274 (352)
                      .+.|+  .+++..+++++.+.. +-+..+|+...-++...|+++++++.++++.+.+. -|...|+.....+.+.   |.
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-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHHHHHHhcccccc
Confidence            66665  367888998888765 34788999999999999999999999999988764 3556677666555544   22


Q ss_pred             H----HHHHHHHHHHHHCCCCCCHHHHHHHHHHHH--------------HHHHHhcCCCCCHHHHHHHHHHHHHc
Q 045379          275 C----EEAEEIFEQLQGAGIEPDVYAYNALMEAYR--------------LISRMHMGCEPDRASYNIMVDAYGRA  331 (352)
Q Consensus       275 ~----~~a~~l~~~m~~~~~~p~~~~~~~li~a~~--------------~~~~m~~~~~p~~~~~~~li~a~~~~  331 (352)
                      .    ++......++.... .-|...|+.+-..+.              .+......-+.+......|++.|+..
T Consensus       195 ~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~  268 (320)
T PLN02789        195 LEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEG  268 (320)
T ss_pred             ccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhh
Confidence            2    45666665655431 122333333322222              22222112234666778888888864

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.44  E-value=0.04  Score=46.82  Aligned_cols=160  Identities=16%  Similarity=0.152  Sum_probs=108.4

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc--
Q 045379          126 IEAYGQKSLHKKAEFTYLELLDSRCIPTED--TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK--  201 (352)
Q Consensus       126 i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~--  201 (352)
                      ...+.+.|++++|.+.|+.+...-..+...  ..-.+..++.+.+++++|...+++..+..-.....-+...+.+.+.  
T Consensus        39 A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~  118 (243)
T PRK10866         39 AQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMA  118 (243)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhh
Confidence            444667899999999999998755433222  2345678889999999999999999876322222344444444331  


Q ss_pred             C---------------CC---HHHHHHHHHHHHHcCCCCCHHHH------------------HHHHHHHHhcCCHHHHHH
Q 045379          202 G---------------GN---PQKAVEIFQRMKRDCCQPSTETY------------------TLMINLYGKASKSFMALK  245 (352)
Q Consensus       202 ~---------------g~---~~~a~~~~~~m~~~~~~~~~~~~------------------~~li~~~~~~g~~~~a~~  245 (352)
                      .               .+   ..+|...|+++.+.  -|+..-.                  -.+..-|.+.|.+..|..
T Consensus       119 ~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~  196 (243)
T PRK10866        119 LDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVN  196 (243)
T ss_pred             cchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHH
Confidence            1               11   34577778887765  3332110                  123455788899999999


Q ss_pred             HHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          246 LFNEMRSH--KCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       246 l~~~m~~~--g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      -|+.+.+.  +.+........++.+|.+.|..++|..+...+..
T Consensus       197 r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~~  240 (243)
T PRK10866        197 RVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIAA  240 (243)
T ss_pred             HHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence            99988764  3344556778888999999999999888776643

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

Probab=97.42  E-value=0.033  Score=54.18  Aligned_cols=135  Identities=17%  Similarity=0.154  Sum_probs=91.3

Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH--HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH
Q 045379          130 GQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAY--CMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQK  207 (352)
Q Consensus       130 ~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~--~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  207 (352)
                      ...+++..|+.....+.+..  |+. .|..++.++  .+.|+.++|..+++.....+.. |..|...+-.+|.+.++.++
T Consensus        20 ld~~qfkkal~~~~kllkk~--Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH--PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC--CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            34578888888888877643  332 344444443  5788888888888777666544 77888888888888888888


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 045379          208 AVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR  271 (352)
Q Consensus       208 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~  271 (352)
                      |..+|++..+.  .|+......+..+|++.+.+.+-.+.--+|.+. .+-+...+-++++.+.+
T Consensus        96 ~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilq  156 (932)
T KOG2053|consen   96 AVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQ  156 (932)
T ss_pred             HHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHH
Confidence            88888888776  567777778888888888876655544444432 23344445555555443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.40  E-value=0.015  Score=46.62  Aligned_cols=89  Identities=13%  Similarity=0.054  Sum_probs=66.4

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS--AVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLM  230 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  230 (352)
                      ....+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++..+.. +-+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            344677788888889999999999998876533222  4678888888999999999999999887753 2356667777


Q ss_pred             HHHHHhcCCHHH
Q 045379          231 INLYGKASKSFM  242 (352)
Q Consensus       231 i~~~~~~g~~~~  242 (352)
                      ...+...|+...
T Consensus       113 g~~~~~~g~~~~  124 (172)
T PRK02603        113 AVIYHKRGEKAE  124 (172)
T ss_pred             HHHHHHcCChHh
Confidence            777777776433

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

Probab=97.40  E-value=0.099  Score=47.58  Aligned_cols=136  Identities=12%  Similarity=0.104  Sum_probs=80.9

Q ss_pred             hcCCHHHHHHHhcCCC----CchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCCHHHHHHHH
Q 045379           75 REVDSNTIWDAFDSLP----PTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSLHKKAEFTY  142 (352)
Q Consensus        75 ~~g~~~~A~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~~~a~~l~  142 (352)
                      .++++..|..+|++..    .++..|--.+..=.++.....+..+.....        .|-..+.+=-..|++..|.++|
T Consensus        85 sq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqif  164 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQIF  164 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            3566777888887654    445555555444444333333222222111        5555555556667778888888


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHH
Q 045379          143 LELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQR  214 (352)
Q Consensus       143 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  214 (352)
                      +.-.+  ..|+...|++.|.-=.+...++.|..+++...--  .|++.+|--....=-+.|+...|..+|+.
T Consensus       165 erW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~Vyer  232 (677)
T KOG1915|consen  165 ERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYER  232 (677)
T ss_pred             HHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            76665  4578888888887777777777777777776553  25555555555554555555555555543

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

Probab=97.40  E-value=0.09  Score=48.57  Aligned_cols=168  Identities=15%  Similarity=0.128  Sum_probs=126.4

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHH
Q 045379          135 HKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPP-SAVVYNSYIDGLLKGGNPQKAVEIFQ  213 (352)
Q Consensus       135 ~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~  213 (352)
                      .+.....++++...-..--.-+|...|...-+..-+..|..+|.+..+.+..+ .+.+++++|..||. ++..-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHH
Confidence            55666677776643322233478888888888888999999999999988777 78888999997765 57899999999


Q ss_pred             H-HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHC--
Q 045379          214 R-MKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNI--CTYTALVNAFAREGLCEEAEEIFEQLQGA--  288 (352)
Q Consensus       214 ~-m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~--~t~~~li~~~~~~g~~~~a~~l~~~m~~~--  288 (352)
                      - |++.|  -+..--...+.-+...|+-..+..+|+.....++.|+.  ..|..+|..=..-|++..+.++-+++...  
T Consensus       426 LGLkkf~--d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~  503 (656)
T KOG1914|consen  426 LGLKKFG--DSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFP  503 (656)
T ss_pred             HHHHhcC--CChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcc
Confidence            6 44432  23444466788888899999999999999988666554  58999999999999999999998887643  


Q ss_pred             -CCCCCHHHHHHHHHHHH
Q 045379          289 -GIEPDVYAYNALMEAYR  305 (352)
Q Consensus       289 -~~~p~~~~~~~li~a~~  305 (352)
                       ...+...+-..+++.|.
T Consensus       504 ~~qe~~~~~~~~~v~RY~  521 (656)
T KOG1914|consen  504 ADQEYEGNETALFVDRYG  521 (656)
T ss_pred             hhhcCCCChHHHHHHHHh
Confidence             13333344555666665

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.39  E-value=0.013  Score=51.08  Aligned_cols=206  Identities=15%  Similarity=0.116  Sum_probs=99.5

Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHH
Q 045379           63 SPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTY  142 (352)
Q Consensus        63 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~  142 (352)
                      ...|......|...|++++|...|.+..          .++.+.+.      -......|......|.+. ++++|.+.+
T Consensus        35 a~~y~~Aa~~fk~~~~~~~A~~ay~kAa----------~~~~~~~~------~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~   97 (282)
T PF14938_consen   35 ADLYEKAANCFKLAKDWEKAAEAYEKAA----------DCYEKLGD------KFEAAKAYEEAANCYKKG-DPDEAIECY   97 (282)
T ss_dssp             HHHHHHHHHHHHHTT-CHHHHHHHHHHH----------HHHHHTT-------HHHHHHHHHHHHHHHHHT-THHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccchhHHHHHHHH----------HHHHHcCC------HHHHHHHHHHHHHHHHhh-CHHHHHHHH
Confidence            3466777788888888888877776431          11111110      000111233333333222 444444444


Q ss_pred             HHHHh----CCCCCC--HHHHHHHHHHHHHc-CCHHHHHHHHHHHHH----CCCCC-CHHHHHHHHHHHHcCCCHHHHHH
Q 045379          143 LELLD----SRCIPT--EDTYALLLKAYCMS-GLLEKAEAVFREMRK----YGLPP-SAVVYNSYIDGLLKGGNPQKAVE  210 (352)
Q Consensus       143 ~~m~~----~~~~p~--~~~~~~li~~~~~~-g~~~~a~~~~~~m~~----~g~~~-~~~~~~~li~~~~~~g~~~~a~~  210 (352)
                      ++..+    .|- |+  ...+..+...|-.. |++++|.+.|++..+    .|.+- -...+..+...+.+.|++++|..
T Consensus        98 ~~A~~~y~~~G~-~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~  176 (282)
T PF14938_consen   98 EKAIEIYREAGR-FSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIE  176 (282)
T ss_dssp             HHHHHHHHHCT--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHHHHHHhcCc-HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHH
Confidence            44332    111 11  11333344455555 677777777776643    22110 12345566667777788888888


Q ss_pred             HHHHHHHcCCC-----CCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCC--HHHHHHHHHHHHh--cCCHHHH
Q 045379          211 IFQRMKRDCCQ-----PSTE-TYTLMINLYGKASKSFMALKLFNEMRSH--KCKPN--ICTYTALVNAFAR--EGLCEEA  278 (352)
Q Consensus       211 ~~~~m~~~~~~-----~~~~-~~~~li~~~~~~g~~~~a~~l~~~m~~~--g~~p~--~~t~~~li~~~~~--~g~~~~a  278 (352)
                      +|++.......     .+.. .+-..+-++...|++..|.+.+++....  +...+  ......||.+|-.  ...++++
T Consensus       177 ~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~a  256 (282)
T PF14938_consen  177 IYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEA  256 (282)
T ss_dssp             HHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHH
T ss_pred             HHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            88776653221     1222 2223344555667777777777776543  22222  2345566666644  2345555


Q ss_pred             HHHHHHHH
Q 045379          279 EEIFEQLQ  286 (352)
Q Consensus       279 ~~l~~~m~  286 (352)
                      ..-|+.+.
T Consensus       257 v~~~d~~~  264 (282)
T PF14938_consen  257 VAEYDSIS  264 (282)
T ss_dssp             CHHHTTSS
T ss_pred             HHHHcccC
Confidence            55555544

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.39  E-value=0.018  Score=42.84  Aligned_cols=90  Identities=17%  Similarity=0.033  Sum_probs=48.0

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHcC
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPT--EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLP--PSAVVYNSYIDGLLKG  202 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~--~~~~~~~~li~~~~~~  202 (352)
                      .++-..|+.++|+.+|++....|...+  ...+..+-+++...|++++|..++++.....-.  .+......+.-++...
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~   88 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNL   88 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHC
Confidence            345556666666666666666665433  224555556666666666666666665543110  0112222223345556


Q ss_pred             CCHHHHHHHHHHHH
Q 045379          203 GNPQKAVEIFQRMK  216 (352)
Q Consensus       203 g~~~~a~~~~~~m~  216 (352)
                      |+.++|...+-...
T Consensus        89 gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   89 GRPKEALEWLLEAL  102 (120)
T ss_pred             CCHHHHHHHHHHHH
Confidence            66666666655444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.38  E-value=0.0065  Score=48.49  Aligned_cols=92  Identities=13%  Similarity=-0.040  Sum_probs=69.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIP--TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDG  198 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  198 (352)
                      .|..+...+...|++++|...|++.......|  ...++..+-.++...|++++|.+.++...+.. +....++..+...
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~i  115 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAVI  115 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHH
Confidence            67778888889999999999999998654332  24588999999999999999999999988752 3344556666666


Q ss_pred             HH-------cCCCHHHHHHHHH
Q 045379          199 LL-------KGGNPQKAVEIFQ  213 (352)
Q Consensus       199 ~~-------~~g~~~~a~~~~~  213 (352)
                      +.       +.|+++.|...++
T Consensus       116 ~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033        116 CHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHhhHHHHHcccHHHHHHHHH
Confidence            66       5666665444444

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

Probab=97.36  E-value=0.0072  Score=54.58  Aligned_cols=90  Identities=16%  Similarity=0.049  Sum_probs=50.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 045379          162 KAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSF  241 (352)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  241 (352)
                      ..+...|+++.|.+.|++..+.. +.+...|..+..+|.+.|++++|...+++..+.. +.+...|..+..+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            34445566666666666665542 2344555555556666666666666666655542 224445555555666666666


Q ss_pred             HHHHHHHHHHhC
Q 045379          242 MALKLFNEMRSH  253 (352)
Q Consensus       242 ~a~~l~~~m~~~  253 (352)
                      +|+..|++....
T Consensus        88 eA~~~~~~al~l   99 (356)
T PLN03088         88 TAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHh
Confidence            666666655543

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

Probab=97.35  E-value=0.0099  Score=53.68  Aligned_cols=101  Identities=17%  Similarity=0.051  Sum_probs=76.6

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 045379          126 IEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNP  205 (352)
Q Consensus       126 i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  205 (352)
                      ...+...|++++|++.|++..+... -+...|..+..++...|++++|+..+++..+.. +.+...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            4556677889999999988887554 256688888888888899999999888887763 34567788888888888999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHH
Q 045379          206 QKAVEIFQRMKRDCCQPSTETYTLM  230 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~~~~~~~~~l  230 (352)
                      ++|...|++..+.  .|+.......
T Consensus        87 ~eA~~~~~~al~l--~P~~~~~~~~  109 (356)
T PLN03088         87 QTAKAALEKGASL--APGDSRFTKL  109 (356)
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHH
Confidence            9999999888875  3444433333

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

Probab=97.33  E-value=0.13  Score=47.55  Aligned_cols=45  Identities=11%  Similarity=0.023  Sum_probs=30.6

Q ss_pred             ccCccccccccccCcCcCcchhHHHHHHHHHhcCCHHHHHHHhcCC
Q 045379           44 RGKGWKYGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSL   89 (352)
Q Consensus        44 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~   89 (352)
                      |.++-..... .-+.+|.+++....-+..--...+++.+.++|.++
T Consensus        35 ~~~~R~~YEq-~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RC   79 (656)
T KOG1914|consen   35 IDKVRETYEQ-LVNVFPSSPRAWKLYIERELASKDFESVEKLFSRC   79 (656)
T ss_pred             HHHHHHHHHH-HhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            3333333333 24567888888777777777788888888888765

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.29  E-value=0.017  Score=50.41  Aligned_cols=184  Identities=15%  Similarity=0.149  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHH----CCCCCC-HH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDS----RCIPT-EDTYALLLKAYCMSGLLEKAEAVFREMRK----YGLPPS-AV  190 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~----~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~~~-~~  190 (352)
                      .|......|...|++++|.+.|.+.-+.    +-+.. ...|.....+|.+ .++++|...+++..+    .|-... ..
T Consensus        37 ~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~-~~~~~Ai~~~~~A~~~y~~~G~~~~aA~  115 (282)
T PF14938_consen   37 LYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKK-GDPDEAIECYEKAIEIYREAGRFSQAAK  115 (282)
T ss_dssp             HHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TTHHHHHHHHHHHHHHHHHCT-HHHHHH
T ss_pred             HHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-hCHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            4555556666777777777777655321    11111 1244444444443 478888777777653    332111 34


Q ss_pred             HHHHHHHHHHcC-CCHHHHHHHHHHHHH----cCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----CCH
Q 045379          191 VYNSYIDGLLKG-GNPQKAVEIFQRMKR----DCCQP-STETYTLMINLYGKASKSFMALKLFNEMRSHKCK-----PNI  259 (352)
Q Consensus       191 ~~~~li~~~~~~-g~~~~a~~~~~~m~~----~~~~~-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~-----p~~  259 (352)
                      .+..+...|... |++++|.+.|++..+    .+.+. -..++..+...+.+.|++++|.++|++.......     ++.
T Consensus       116 ~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~  195 (282)
T PF14938_consen  116 CLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSA  195 (282)
T ss_dssp             HHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhH
Confidence            566777778888 899999999988654    23111 1345677889999999999999999998764322     222


Q ss_pred             H-HHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCC--HHHHHHHHHHHH
Q 045379          260 C-TYTALVNAFAREGLCEEAEEIFEQLQGA--GIEPD--VYAYNALMEAYR  305 (352)
Q Consensus       260 ~-t~~~li~~~~~~g~~~~a~~l~~~m~~~--~~~p~--~~~~~~li~a~~  305 (352)
                      . .+-..+-.+...|+...|.+.+++....  ++..+  ......||+++.
T Consensus       196 ~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~  246 (282)
T PF14938_consen  196 KEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYE  246 (282)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHH
Confidence            2 2334455677789999999999998754  34333  345556666665

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.28  E-value=0.015  Score=45.13  Aligned_cols=94  Identities=10%  Similarity=-0.104  Sum_probs=67.6

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKG  202 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  202 (352)
                      -.+..-+...|++++|.++|+.+....+ -+..-|-.|--+|-..|++++|...|....... +.+...+-.+-.++...
T Consensus        39 Y~~A~~ly~~G~l~~A~~~f~~L~~~Dp-~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         39 YRYAMQLMEVKEFAGAARLFQLLTIYDA-WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHc
Confidence            3444556677888888888887776543 245566677777777888888888888877765 35667777777788888


Q ss_pred             CCHHHHHHHHHHHHHc
Q 045379          203 GNPQKAVEIFQRMKRD  218 (352)
Q Consensus       203 g~~~~a~~~~~~m~~~  218 (352)
                      |+.+.|.+-|+..+..
T Consensus       117 G~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        117 DNVCYAIKALKAVVRI  132 (157)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            8888888888776653

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.28  E-value=0.033  Score=52.78  Aligned_cols=138  Identities=12%  Similarity=0.016  Sum_probs=99.3

Q ss_pred             CCCCCCHHHHHHHHHHHHHcC-----CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC--------CHHHHHHHHHH
Q 045379          148 SRCIPTEDTYALLLKAYCMSG-----LLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGG--------NPQKAVEIFQR  214 (352)
Q Consensus       148 ~~~~p~~~~~~~li~~~~~~g-----~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g--------~~~~a~~~~~~  214 (352)
                      .+.+.+...|...+.+.....     ..+.|..+|++..+.. +-....+..+..+|....        ++..+.+..++
T Consensus       331 ~~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld-P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        331 QGLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE-PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             ccCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            445678899999998865432     3678999999998863 233455555444443321        23344444444


Q ss_pred             HHHc-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          215 MKRD-CCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       215 m~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      .... ..+.+...|.++.......|++++|...+++..+.+  |+...|..+...+...|+.++|.+.+.+....
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3332 234456788888777778899999999999998874  78889999999999999999999999998765

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

Probab=97.27  E-value=0.027  Score=52.34  Aligned_cols=170  Identities=12%  Similarity=0.032  Sum_probs=90.9

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHH--HHHHH--Hh
Q 045379          161 LKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTL--MINLY--GK  236 (352)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~--li~~~--~~  236 (352)
                      ++.+...|++++|.+..+++...+ +.+...+..-+-+..+.+++++|..+.+.-..      ..+++.  +=.+|  .+
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~------~~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA------LLVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch------hhhcchhhHHHHHHHHH
Confidence            344555666777777666666654 44555566666666667777777644433221      011111  22333  35


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHHH--HH-h
Q 045379          237 ASKSFMALKLFNEMRSHKCKPNI-CTYTALVNAFAREGLCEEAEEIFEQLQGAGIEP-DVYAYNALMEAYRLIS--RM-H  311 (352)
Q Consensus       237 ~g~~~~a~~l~~~m~~~g~~p~~-~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-~~~~~~~li~a~~~~~--~m-~  311 (352)
                      .++.++|+..++     |..++. .+...-...+-+.|++++|+.+|..+.+++..- +...-..++.+-....  .+ .
T Consensus        92 lnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~  166 (652)
T KOG2376|consen   92 LNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQS  166 (652)
T ss_pred             cccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHh
Confidence            677777777766     222222 244444556667777888888887776554321 1222222222222111  23 2


Q ss_pred             cCCCC--CHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          312 MGCEP--DRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       312 ~~~~p--~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ....|  +-..+....-.+...|++.+|++++.
T Consensus       167 v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~  199 (652)
T KOG2376|consen  167 VPEVPEDSYELLYNTACILIENGKYNQAIELLE  199 (652)
T ss_pred             ccCCCcchHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            22333  22333344456778899999999986

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.25  E-value=0.024  Score=42.22  Aligned_cols=88  Identities=16%  Similarity=0.099  Sum_probs=41.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHH
Q 045379          162 KAYCMSGLLEKAEAVFREMRKYGLPPS--AVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPS----TETYTLMINLYG  235 (352)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~  235 (352)
                      .++-..|+.++|..+|++....|....  ...+-.+-..+...|++++|..++++....  .|+    ......+..++.
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~--~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE--FPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCccccHHHHHHHHHHHH
Confidence            344445555555555555555554333  223334444555555555555555555443  122    111122223444


Q ss_pred             hcCCHHHHHHHHHHHH
Q 045379          236 KASKSFMALKLFNEMR  251 (352)
Q Consensus       236 ~~g~~~~a~~l~~~m~  251 (352)
                      ..|+.++|+..+-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            5555555555554433

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.23  E-value=0.024  Score=43.98  Aligned_cols=92  Identities=11%  Similarity=-0.067  Sum_probs=61.5

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 045379          195 YIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGL  274 (352)
Q Consensus       195 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~  274 (352)
                      +..-+...|++++|.++|+-+.... +-+..-|-.|-.++-..|++++|+..|....... +-|...+-.+-.++...|+
T Consensus        41 ~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG~  118 (157)
T PRK15363         41 YAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCC
Confidence            3344556777777777777766543 2245556667777777777777777777776655 3456667777777777777


Q ss_pred             HHHHHHHHHHHHHC
Q 045379          275 CEEAEEIFEQLQGA  288 (352)
Q Consensus       275 ~~~a~~l~~~m~~~  288 (352)
                      .+.|.+.|+.....
T Consensus       119 ~~~A~~aF~~Ai~~  132 (157)
T PRK15363        119 VCYAIKALKAVVRI  132 (157)
T ss_pred             HHHHHHHHHHHHHH
Confidence            77777777766544

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

Probab=97.21  E-value=0.28  Score=48.87  Aligned_cols=200  Identities=14%  Similarity=0.142  Sum_probs=125.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHH---------------------------HHcCCHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSR--CIPTEDTYALLLKAY---------------------------CMSGLLE  171 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~--~~p~~~~~~~li~~~---------------------------~~~g~~~  171 (352)
                      --+....++...+-..+..+++++..-..  +.-+...-|.+|-..                           ...+-++
T Consensus       986 ~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyE 1065 (1666)
T KOG0985|consen  986 EVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYE 1065 (1666)
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHH
Confidence            33455666777777777777777765321  111222222333332                           3333344


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          172 KAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMR  251 (352)
Q Consensus       172 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~  251 (352)
                      +|..+|+..     ..+....+.||.-   .+.++.|.++-++..      ....|..+..+-.+.|...+|++-|-+..
T Consensus      1066 EAF~ifkkf-----~~n~~A~~VLie~---i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAieSyikad 1131 (1666)
T KOG0985|consen 1066 EAFAIFKKF-----DMNVSAIQVLIEN---IGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIESYIKAD 1131 (1666)
T ss_pred             HHHHHHHHh-----cccHHHHHHHHHH---hhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHHHHHhcC
Confidence            444444432     2233333444332   334444444444332      45678888888888888888888775443


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH---HHHHH-hcCCCCCHHHHHHHHHH
Q 045379          252 SHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR---LISRM-HMGCEPDRASYNIMVDA  327 (352)
Q Consensus       252 ~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~---~~~~m-~~~~~p~~~~~~~li~a  327 (352)
                            |+..|..++....+.|.|++-.+.+...++..-.|.+.+  .||-||+   -+.++ +.-.-||......+.+-
T Consensus      1132 ------Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~--eLi~AyAkt~rl~elE~fi~gpN~A~i~~vGdr 1203 (1666)
T KOG0985|consen 1132 ------DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDS--ELIFAYAKTNRLTELEEFIAGPNVANIQQVGDR 1203 (1666)
T ss_pred             ------CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchH--HHHHHHHHhchHHHHHHHhcCCCchhHHHHhHH
Confidence                  667899999999999999999999988888877776654  6777777   33344 44556788888888888


Q ss_pred             HHHcCCcchhHHHHH
Q 045379          328 YGRAGLHEGKCSYSL  342 (352)
Q Consensus       328 ~~~~g~~~~A~~~~~  342 (352)
                      |...|.++.|.=+|.
T Consensus      1204 cf~~~~y~aAkl~y~ 1218 (1666)
T KOG0985|consen 1204 CFEEKMYEAAKLLYS 1218 (1666)
T ss_pred             HhhhhhhHHHHHHHH
Confidence            888888887776654

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.19  E-value=0.083  Score=50.11  Aligned_cols=171  Identities=16%  Similarity=0.094  Sum_probs=107.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLE  144 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~  144 (352)
                      +...++.+..-.=...+....-...+.|...|...+++.....+                     ...++...|.++|++
T Consensus       309 i~~~Ia~aL~~~l~~~e~~~~~~~~~~~~~Ay~~~lrg~~~~~~---------------------~~~~~~~~A~~lle~  367 (517)
T PRK10153        309 LSNSLSRALNQPWPERMQERLQQGLPHQGAALTLFYQAHHYLNS---------------------GDAKSLNKASDLLEE  367 (517)
T ss_pred             HHHHHHHHhCccccHHHHHHHhccCCCCHHHHHHHHHHHHHHhc---------------------CCHHHHHHHHHHHHH
Confidence            34445555432222222333334445677777766665432111                     012347789999999


Q ss_pred             HHhCCCCCC-HHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHH
Q 045379          145 LLDSRCIPT-EDTYALLLKAYCMSG--------LLEKAEAVFREMRKY-GLPPSAVVYNSYIDGLLKGGNPQKAVEIFQR  214 (352)
Q Consensus       145 m~~~~~~p~-~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  214 (352)
                      ..+..  |+ ...|..+..++....        ++..+.+...+.... ..+.+...|..+.-.....|++++|...+++
T Consensus       368 Ai~ld--P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~r  445 (517)
T PRK10153        368 ILKSE--PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINK  445 (517)
T ss_pred             HHHhC--CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            98855  54 345555444443321        122333333333232 2344557787777777778999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 045379          215 MKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTY  262 (352)
Q Consensus       215 m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~  262 (352)
                      ..+.+  |+...|..+...+...|+.++|.+.+++....  .|...||
T Consensus       446 Al~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~pt~  489 (517)
T PRK10153        446 AIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGENTL  489 (517)
T ss_pred             HHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCchH
Confidence            99874  68889999999999999999999999998765  4444444

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

Probab=97.18  E-value=0.044  Score=48.44  Aligned_cols=112  Identities=14%  Similarity=0.074  Sum_probs=86.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 045379          154 EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINL  233 (352)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  233 (352)
                      ..+.+..|.-|...|+...|.++-.+.   + .|+..-|-..+.+++..++|++-+++-..   +   -++..|-.++.+
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~F---k-v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~  246 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKEF---K-VPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEA  246 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHHc---C-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHH
Confidence            346777788888899988888886664   2 37888899999999999999988876432   1   245788999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          234 YGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       234 ~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      |.+.|+..+|......+          ++..-+..|.+.|++.+|.+.-.+.
T Consensus       247 ~~~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  247 CLKYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHHCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHHc
Confidence            99999999998888762          2355677888888888887764443

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

>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=97.16  E-value=0.017  Score=44.85  Aligned_cols=72  Identities=22%  Similarity=0.250  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 045379          226 TYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG-----AGIEPDVYAYN  298 (352)
Q Consensus       226 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~-----~~~~p~~~~~~  298 (352)
                      +...++..+...|++++|..+.+.+.... +.+...|..+|.+|...|+..+|.+.|.++.+     .|+.|+..+-.
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            45556666666677777777766665542 44556666777777777777777777666532     36666665543

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

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.14  E-value=0.036  Score=46.51  Aligned_cols=131  Identities=14%  Similarity=-0.048  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH-----H
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNS-----Y  195 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~-----l  195 (352)
                      +.+.++....-.|.+.-...++++..+...+-++.....+++...+.|+.+.|...|++..+..-+.+..+++.     .
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            44444444444555555555555555544444555555555555555555555555554443322222222222     2


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          196 IDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       196 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      ...|..++++..|...|.+..... +.|+...|.=.-+..-.|+...|++..+.|..
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~  314 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQ  314 (366)
T ss_pred             hhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhc
Confidence            222333444555555554444332 11233333322233333455555555555544

>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=97.13  E-value=0.0027  Score=41.94  Aligned_cols=22  Identities=23%  Similarity=0.244  Sum_probs=8.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHH
Q 045379          229 LMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       229 ~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      .+..+|.+.|++++|.++++.+
T Consensus        30 ~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen   30 LLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHCC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHH
Confidence            3333333333333333333333

...

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=97.10  E-value=0.13  Score=48.59  Aligned_cols=174  Identities=15%  Similarity=0.078  Sum_probs=106.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|+.+.-.+..-.++++|++.|.....-+. -|...|.-+--.-++.|+++.......++.+.. +.....|.....++.
T Consensus        77 CwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~-dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~  154 (700)
T KOG1156|consen   77 CWHVLGLLQRSDKKYDEAIKCYRNALKIEK-DNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQH  154 (700)
T ss_pred             hHHHHHHHHhhhhhHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHH
Confidence            677777777777888888888887776432 245566666666667777777777766665542 233456666777777


Q ss_pred             cCCCHHHHHHHHHHHHHcC-CCCCHHHHHHHH------HHHHhcCCHHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHhc
Q 045379          201 KGGNPQKAVEIFQRMKRDC-CQPSTETYTLMI------NLYGKASKSFMALKLFNEMRSHKCKPNICT-YTALVNAFARE  272 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~-~~~~~~~~~~li------~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t-~~~li~~~~~~  272 (352)
                      -.|++..|..+.++..+.. -.|+...+....      ....+.|..++|.+.+..-...  ..|-.. -..-...+.+.
T Consensus       155 L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl  232 (700)
T KOG1156|consen  155 LLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKL  232 (700)
T ss_pred             HHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHH
Confidence            7788888888887776654 245555544332      2334556666666655544322  112222 23334556677


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 045379          273 GLCEEAEEIFEQLQGAGIEPDVYAYNAL  300 (352)
Q Consensus       273 g~~~~a~~l~~~m~~~~~~p~~~~~~~l  300 (352)
                      +++++|..++..+...  .||-.-|...
T Consensus       233 ~~lEeA~~~y~~Ll~r--nPdn~~Yy~~  258 (700)
T KOG1156|consen  233 GQLEEAVKVYRRLLER--NPDNLDYYEG  258 (700)
T ss_pred             hhHHhHHHHHHHHHhh--CchhHHHHHH
Confidence            7777777777777765  4555554443

>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=97.09  E-value=0.003  Score=41.75  Aligned_cols=52  Identities=17%  Similarity=0.240  Sum_probs=27.1

Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 045379          166 MSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       166 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      ..|++++|.++|+++.+.. +-+....-.+..+|.+.|++++|..+++++...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3455555555555555442 224445555555555555555555555555554

...

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

Probab=96.94  E-value=0.007  Score=47.01  Aligned_cols=74  Identities=19%  Similarity=0.284  Sum_probs=56.7

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----hCCCCCCHHHHHH
Q 045379          190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMR-----SHKCKPNICTYTA  264 (352)
Q Consensus       190 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~-----~~g~~p~~~t~~~  264 (352)
                      .....++..+...|++++|..+.+.+.... +.+...|..+|.+|...|+..+|.+.|+.+.     +.|+.|+..+-..
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~l  141 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRAL  141 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHHH
Confidence            556677778889999999999999998874 5688899999999999999999999999874     3599999876543

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

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

Probab=96.94  E-value=0.02  Score=43.07  Aligned_cols=47  Identities=17%  Similarity=0.151  Sum_probs=28.6

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHH
Q 045379          255 CKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA-GIEPDVYAYNALM  301 (352)
Q Consensus       255 ~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~-~~~p~~~~~~~li  301 (352)
                      ..|+..+..+++.+|+..|++..|+++.+...+. ++..+..+|..|+
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll   95 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLL   95 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            4466666666666666666666666666666543 5544455555544

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

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

Probab=96.88  E-value=0.0072  Score=39.52  Aligned_cols=51  Identities=16%  Similarity=0.141  Sum_probs=20.0

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 045379          129 YGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREM  180 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  180 (352)
                      +.+.|++++|.+.|++..+... -+...+..+..++...|++++|...|+++
T Consensus         7 ~~~~g~~~~A~~~~~~~l~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~a   57 (65)
T PF13432_consen    7 LYQQGDYDEAIAAFEQALKQDP-DNPEAWYLLGRILYQQGRYDEALAYYERA   57 (65)
T ss_dssp             HHHCTHHHHHHHHHHHHHCCST-THHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3344444444444444443331 12333444444444444444444444443

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

Probab=96.80  E-value=0.0088  Score=39.10  Aligned_cols=58  Identities=21%  Similarity=0.230  Sum_probs=50.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 045379          160 LLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      +...+.+.|++++|.+.|++..+.. +-+...+..+..++...|++++|...|++..+.
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            4567889999999999999999986 557888999999999999999999999999875

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=96.79  E-value=0.49  Score=44.82  Aligned_cols=185  Identities=16%  Similarity=0.143  Sum_probs=114.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC----CchhhHHHHHHHHHHHhhccCcch----hhH----HhHHHHHHHHHHHcc
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP----PTHATWDDLINVSVQLRLNKKWDP----IVL----MSCVSILLIEAYGQK  132 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~~~~----~~~----~~~~~~~li~~~~~~  132 (352)
                      .+..+.-.+....++++|++.|....    .|...|..+--.=.++++.+..-.    .++    ....|...+-++.-.
T Consensus        77 CwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~  156 (700)
T KOG1156|consen   77 CWHVLGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLL  156 (700)
T ss_pred             hHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHH
Confidence            44666667777788888888886532    344555544333334444332111    111    111888888999999


Q ss_pred             CCHHHHHHHHHHHHhCC-CCCCHHHHHHHHH------HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 045379          133 SLHKKAEFTYLELLDSR-CIPTEDTYALLLK------AYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNP  205 (352)
Q Consensus       133 g~~~~a~~l~~~m~~~~-~~p~~~~~~~li~------~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  205 (352)
                      |++..|..+.++..+.. -.|+...|.-...      .....|.++.|.+.+..-... +......-..-...+.+.+++
T Consensus       157 g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~l  235 (700)
T KOG1156|consen  157 GEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQL  235 (700)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhH
Confidence            99999999999998654 3466665543332      334577778887776654432 212222333556678889999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHH-HHHHHHhcCCHHHHH-HHHHHHHh
Q 045379          206 QKAVEIFQRMKRDCCQPSTETYTL-MINLYGKASKSFMAL-KLFNEMRS  252 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~~~~~~~~~-li~~~~~~g~~~~a~-~l~~~m~~  252 (352)
                      ++|..++..++..  .||...|.- +..++.+..+.-++. .+|....+
T Consensus       236 EeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~  282 (700)
T KOG1156|consen  236 EEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSE  282 (700)
T ss_pred             HhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhh
Confidence            9999999999987  466665554 445554343433444 56665544

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.78  E-value=0.049  Score=46.77  Aligned_cols=98  Identities=16%  Similarity=0.083  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT--EDTYALLLKAYCMSGLLEKAEAVFREMRKY--GLPPSAVVYNSYI  196 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~~~~~~~~~li  196 (352)
                      .|...+..+.+.|++++|...|+.+.+..+...  ...+--+..+|...|++++|...|+.+.+.  +.+.....+-.+.
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            344444444444555555555555554332110  234444555555555555555555555432  1111222233333


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHc
Q 045379          197 DGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       197 ~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      ..+...|+.++|..+|+++.+.
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            3444555555555555555443

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

Probab=96.77  E-value=0.033  Score=41.91  Aligned_cols=51  Identities=16%  Similarity=0.148  Sum_probs=29.5

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHH
Q 045379          219 CCQPSTETYTLMINLYGKASKSFMALKLFNEMRS-HKCKPNICTYTALVNAF  269 (352)
Q Consensus       219 ~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~-~g~~p~~~t~~~li~~~  269 (352)
                      ...|+..+..+++.+|+..|++..|+++.+...+ .+++.+..+|..|+.-+
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            3456666666666666666666666666665543 34555555666665543

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=96.69  E-value=0.0089  Score=40.72  Aligned_cols=74  Identities=18%  Similarity=0.083  Sum_probs=51.6

Q ss_pred             CcCcchhHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHH
Q 045379           59 FPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKA  138 (352)
Q Consensus        59 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  138 (352)
                      ||.+..+++.+...|...|++++|+..|++..          ......+     +.......+++.+...|...|++++|
T Consensus         1 H~~~a~~~~~la~~~~~~~~~~~A~~~~~~al----------~~~~~~~-----~~~~~~a~~~~~lg~~~~~~g~~~~A   65 (78)
T PF13424_consen    1 HPDTANAYNNLARVYRELGRYDEALDYYEKAL----------DIEEQLG-----DDHPDTANTLNNLGECYYRLGDYEEA   65 (78)
T ss_dssp             -HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHH----------HHHHHTT-----THHHHHHHHHHHHHHHHHHTTHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH----------HHHHHHC-----CCCHHHHHHHHHHHHHHHHcCCHHHH
Confidence            45667789999999999999999999888641          1111111     11122233788888999999999999


Q ss_pred             HHHHHHHHh
Q 045379          139 EFTYLELLD  147 (352)
Q Consensus       139 ~~l~~~m~~  147 (352)
                      ++.+++..+
T Consensus        66 ~~~~~~al~   74 (78)
T PF13424_consen   66 LEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999887653

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.65  E-value=0.052  Score=46.61  Aligned_cols=98  Identities=15%  Similarity=0.139  Sum_probs=72.1

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHHHH
Q 045379          189 AVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPS----TETYTLMINLYGKASKSFMALKLFNEMRSH--KCKPNICTY  262 (352)
Q Consensus       189 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~l~~~m~~~--g~~p~~~t~  262 (352)
                      ...|...+..+.+.|++++|...|+.+.+.  .|+    ..++-.+...|...|++++|...|+.+.+.  +.+.....+
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl  220 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHH
Confidence            455666666667778899999999988876  333    246677888888899999999999888753  112234455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          263 TALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       263 ~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      -.+...+...|+.++|..+|+++.+.
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            55667777889999999999988765

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

Probab=96.55  E-value=0.34  Score=46.66  Aligned_cols=19  Identities=26%  Similarity=0.232  Sum_probs=15.2

Q ss_pred             HHHHHHHHcCCcchhHHHH
Q 045379          323 IMVDAYGRAGLHEGKCSYS  341 (352)
Q Consensus       323 ~li~a~~~~g~~~~A~~~~  341 (352)
                      -...+|.+.|++.+|.++-
T Consensus       775 ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  775 EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             HHHHHHHHhccHHHHHHHH
Confidence            5778888888888888764

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

Probab=96.51  E-value=0.019  Score=37.95  Aligned_cols=17  Identities=24%  Similarity=0.518  Sum_probs=6.3

Q ss_pred             HHHcCCCHHHHHHHHHH
Q 045379          198 GLLKGGNPQKAVEIFQR  214 (352)
Q Consensus       198 ~~~~~g~~~~a~~~~~~  214 (352)
                      .+...|++++|+..|++
T Consensus        12 ~~~~~~~~~~A~~~~~~   28 (69)
T PF13414_consen   12 IYFQQGDYEEAIEYFEK   28 (69)
T ss_dssp             HHHHTTHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHH
Confidence            33333333333333333

...

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

Probab=96.50  E-value=0.018  Score=38.10  Aligned_cols=64  Identities=23%  Similarity=0.215  Sum_probs=56.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 045379          223 STETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREG-LCEEAEEIFEQLQG  287 (352)
Q Consensus       223 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g-~~~~a~~l~~~m~~  287 (352)
                      +..+|..+-..+...|++++|+..|++..+.. +-+...|..+-.+|...| ++++|.+.+++..+
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            46788999999999999999999999998864 346678999999999999 79999999998865

...

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

Probab=96.46  E-value=0.31  Score=44.28  Aligned_cols=129  Identities=16%  Similarity=0.144  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSR-CIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      +|...|++..+..-.+.|..+|-+..+.+ ..+++..+++.|.-++ .|+..-|..+|+-=... ++.+..-.+-.+..+
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~-f~d~~~y~~kyl~fL  476 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK-FPDSTLYKEKYLLFL  476 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh-CCCchHHHHHHHHHH
Confidence            55555555555555666666666666555 3455555555555444 34555555555442222 111222223444455


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPS--TETYTLMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      .+.++-..|..+|+...++ +..+  ...|..+|.--...|++..+..+-+.|.+
T Consensus       477 i~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         477 IRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            5555555666666533321 0111  23555556555556666555555555543

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

Probab=96.44  E-value=0.18  Score=50.08  Aligned_cols=160  Identities=18%  Similarity=0.129  Sum_probs=96.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH--HHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYN--SYIDG  198 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~--~li~~  198 (352)
                      .|..|...|....+...|.+.|....+-+. .+......+.+.|++...++.|..+.-..-+.. +.-...+|  ..--.
T Consensus       494 af~~LG~iYrd~~Dm~RA~kCf~KAFeLDa-tdaeaaaa~adtyae~~~we~a~~I~l~~~qka-~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDDMKRAKKCFDKAFELDA-TDAEAAAASADTYAEESTWEEAFEICLRAAQKA-PAFACKENWVQRGPY  571 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCc-hhhhhHHHHHHHhhccccHHHHHHHHHHHhhhc-hHHHHHhhhhhcccc
Confidence            677777777777777777777777666432 245566777777777777777777722221110 01111111  23334


Q ss_pred             HHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH--HHHHhcCCHH
Q 045379          199 LLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALV--NAFAREGLCE  276 (352)
Q Consensus       199 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li--~~~~~~g~~~  276 (352)
                      |.+.++...|..-|+.-.... +-|...|..+..+|.+.|.+..|.++|.+....  .|+. +|...-  -.-+..|.++
T Consensus       572 yLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s-~y~~fk~A~~ecd~GkYk  647 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLS-KYGRFKEAVMECDNGKYK  647 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHh-HHHHHHHHHHHHHhhhHH
Confidence            556667777777777665543 336677788888888888888888888776553  3433 232222  2234567788


Q ss_pred             HHHHHHHHHH
Q 045379          277 EAEEIFEQLQ  286 (352)
Q Consensus       277 ~a~~l~~~m~  286 (352)
                      +|+..+....
T Consensus       648 eald~l~~ii  657 (1238)
T KOG1127|consen  648 EALDALGLII  657 (1238)
T ss_pred             HHHHHHHHHH
Confidence            8877777665

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

Probab=96.39  E-value=0.81  Score=44.31  Aligned_cols=196  Identities=12%  Similarity=-0.023  Sum_probs=128.6

Q ss_pred             chhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHH
Q 045379           92 THATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT-EDTYALLLK  162 (352)
Q Consensus        92 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~~~~~li~  162 (352)
                      +...|..+--+....|+.....+.++...        .|+.+-..|.-.|.-..|..+++.-......|+ ...+-..-.
T Consensus       322 d~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lmask  401 (799)
T KOG4162|consen  322 DAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMASK  401 (799)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHHHH
Confidence            56666666666666777666555555443        888898999999999999999887765443343 334444444


Q ss_pred             HHHH-cCCHHHHHHHHHHHHHC--CC--CCCHHHHHHHHHHHHcCC-----------CHHHHHHHHHHHHHcCCCCCHHH
Q 045379          163 AYCM-SGLLEKAEAVFREMRKY--GL--PPSAVVYNSYIDGLLKGG-----------NPQKAVEIFQRMKRDCCQPSTET  226 (352)
Q Consensus       163 ~~~~-~g~~~~a~~~~~~m~~~--g~--~~~~~~~~~li~~~~~~g-----------~~~~a~~~~~~m~~~~~~~~~~~  226 (352)
                      .|.+ .+..++++..-.+....  +.  ......|-.+--+|...-           ...++.+.+++..+.+.. |..+
T Consensus       402 lc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~-dp~~  480 (799)
T KOG4162|consen  402 LCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT-DPLV  480 (799)
T ss_pred             HHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC-CchH
Confidence            4544 45666666665555441  10  112234444444444321           244677777777665422 3333


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          227 YTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       227 ~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      .-.+---|+..++++.|.+..++..+.+-.-+...|..+...+..++++.+|+.+.+...+.
T Consensus       481 if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E  542 (799)
T KOG4162|consen  481 IFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE  542 (799)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence            33444467788899999999999988866778889999999999999999999998876543

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

Probab=96.38  E-value=0.79  Score=42.50  Aligned_cols=155  Identities=17%  Similarity=0.030  Sum_probs=78.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSA-VVYNSYIDGL  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~  199 (352)
                      +...+..+|.+.++++.+...|.+.......|+..         .+....+++.+..+...-.  .|.. .-...--+.+
T Consensus       300 ~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~  368 (539)
T KOG0548|consen  300 ALARLGNAYTKREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEA  368 (539)
T ss_pred             HHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHH
Confidence            33334456666778888888887766543333321         1122223333322222211  1111 1111224455


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  279 (352)
                      .+.|++..|...|.++++.. +-|...|..-.-+|.+.|.+..|++-.+...+.. ++....|..=..++....++++|.
T Consensus       369 Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAl  446 (539)
T KOG0548|consen  369 FKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKAL  446 (539)
T ss_pred             HhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHH
Confidence            56667777777777766664 4456667777777777777776666655555441 222223333333333444566666


Q ss_pred             HHHHHHHHC
Q 045379          280 EIFEQLQGA  288 (352)
Q Consensus       280 ~l~~~m~~~  288 (352)
                      +.|.+.++.
T Consensus       447 eay~eale~  455 (539)
T KOG0548|consen  447 EAYQEALEL  455 (539)
T ss_pred             HHHHHHHhc
Confidence            666655543

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

Probab=96.36  E-value=0.045  Score=46.37  Aligned_cols=46  Identities=15%  Similarity=0.301  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHH
Q 045379          206 QKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKS-FMALKLFNEMR  251 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~l~~~m~  251 (352)
                      +-+.+++++|...|+.||..+-..|++++++.+.. .+..++.-.|.
T Consensus       140 ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  140 NCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             hHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence            45788888888888888888888888888887764 33444444443

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

Probab=96.34  E-value=0.052  Score=46.02  Aligned_cols=120  Identities=16%  Similarity=0.297  Sum_probs=65.3

Q ss_pred             CCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 045379          221 QPSTETYTLMINLYGKA-----SKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVY  295 (352)
Q Consensus       221 ~~~~~~~~~li~~~~~~-----g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~  295 (352)
                      ..|..+|-..+..+...     +.++=....++.|.+.|+.-|..+|+.||+.+-+..-+-.  .+|+..--.  .|-..
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~--nvfQ~~F~H--YP~QQ  139 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQ--NVFQKVFLH--YPQQQ  139 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccH--HHHHHHHhh--Cchhh
Confidence            34666777777766543     4556666667777777888888888887777654322110  001100000  00000


Q ss_pred             HHHHHHHHHHHHHHH-hcCCCCCHHHHHHHHHHHHHcCCc-chhHHHHHHHhhccC
Q 045379          296 AYNALMEAYRLISRM-HMGCEPDRASYNIMVDAYGRAGLH-EGKCSYSLVELSVKH  349 (352)
Q Consensus       296 ~~~~li~a~~~~~~m-~~~~~p~~~~~~~li~a~~~~g~~-~~A~~~~~~~~~~~~  349 (352)
                        +   .+..++++| ..|+.||.++-..|+.++.+.|.. .+..+++.-||..++
T Consensus       140 --~---C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmPkfkn  190 (406)
T KOG3941|consen  140 --N---CAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMPKFKN  190 (406)
T ss_pred             --h---HHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhhhhcc
Confidence              0   011166777 667777777777777777776643 334444444454444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.32  E-value=0.19  Score=44.04  Aligned_cols=152  Identities=14%  Similarity=0.253  Sum_probs=101.1

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH--cC----CHHHHHHHHHHHHHCCC---CCCHHHHHHHHHHHHcCCC-
Q 045379          135 HKKAEFTYLELLDSRCIPTEDTYALLLKAYCM--SG----LLEKAEAVFREMRKYGL---PPSAVVYNSYIDGLLKGGN-  204 (352)
Q Consensus       135 ~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~--~g----~~~~a~~~~~~m~~~g~---~~~~~~~~~li~~~~~~g~-  204 (352)
                      +++...+++.|.+.|++-+..+|.+.......  ..    ....|.++|+.|++...   .++..++..++..  ...+ 
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            56778899999999999888877764444443  22    35678999999998742   3445667776654  3333 


Q ss_pred             ---HHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCC--HHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCC--
Q 045379          205 ---PQKAVEIFQRMKRDCCQPST--ETYTLMINLYGKASK--SFMALKLFNEMRSHKCKPNICTYTALVNA-FAREGL--  274 (352)
Q Consensus       205 ---~~~a~~~~~~m~~~~~~~~~--~~~~~li~~~~~~g~--~~~a~~l~~~m~~~g~~p~~~t~~~li~~-~~~~g~--  274 (352)
                         .+.++.+|+.+.+.|+..+-  .....++..+.....  ..++.++++.+.+.|+++....|..+--. +...+.  
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~~  235 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEEK  235 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCchHH
Confidence               46788889999998876543  344444444433333  45889999999999999998888776443 333333  


Q ss_pred             -HHHHHHHHHHHHHC
Q 045379          275 -CEEAEEIFEQLQGA  288 (352)
Q Consensus       275 -~~~a~~l~~~m~~~  288 (352)
                       .+...++.+.+.+.
T Consensus       236 ~~~~i~ev~~~L~~~  250 (297)
T PF13170_consen  236 IVEEIKEVIDELKEQ  250 (297)
T ss_pred             HHHHHHHHHHHHhhC
Confidence             44455555555543

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.31  E-value=0.34  Score=37.14  Aligned_cols=84  Identities=18%  Similarity=0.173  Sum_probs=36.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 045379          159 LLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKAS  238 (352)
Q Consensus       159 ~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  238 (352)
                      .++..+.+.+.+.....+++.+.+.+ ..+...++.++..|++.+ .++....++.      .++......++..|.+.+
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~~   83 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHcC
Confidence            34444444445555555555554444 234445555555555432 2222222221      012222333455555555


Q ss_pred             CHHHHHHHHHHH
Q 045379          239 KSFMALKLFNEM  250 (352)
Q Consensus       239 ~~~~a~~l~~~m  250 (352)
                      .++++..++..+
T Consensus        84 l~~~~~~l~~k~   95 (140)
T smart00299       84 LYEEAVELYKKD   95 (140)
T ss_pred             cHHHHHHHHHhh
Confidence            555555555444

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

Probab=96.25  E-value=0.014  Score=39.68  Aligned_cols=62  Identities=21%  Similarity=0.283  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          225 ETYTLMINLYGKASKSFMALKLFNEMRSH----KC-KPN-ICTYTALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       225 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~----g~-~p~-~~t~~~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                      .+++.+-..|...|++++|+..|++..+.    |- .|+ ..++..+...|...|++++|++.+++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45566666666666666666666655432    11 122 3456666666666677777766666654

...

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

Probab=96.23  E-value=0.083  Score=45.19  Aligned_cols=101  Identities=16%  Similarity=0.117  Sum_probs=73.9

Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 045379          163 AYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFM  242 (352)
Q Consensus       163 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  242 (352)
                      -..+.+++.+|+..|.+.++.. +-|.+-|..-..+|++.|.++.|.+-.+.-+... +-...+|..|-.+|...|++++
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 KLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHH
Confidence            3667788888888888888752 3456667777888888888888888877776642 2235678888888888888888


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHH
Q 045379          243 ALKLFNEMRSHKCKPNICTYTALVN  267 (352)
Q Consensus       243 a~~l~~~m~~~g~~p~~~t~~~li~  267 (352)
                      |++.|++..+.  .|+-.+|..=+.
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            88888877653  677666655443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.17  E-value=0.58  Score=38.54  Aligned_cols=58  Identities=21%  Similarity=0.107  Sum_probs=42.7

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 045379          126 IEAYGQKSLHKKAEFTYLELLDSRCI--PTEDTYALLLKAYCMSGLLEKAEAVFREMRKY  183 (352)
Q Consensus       126 i~~~~~~g~~~~a~~l~~~m~~~~~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  183 (352)
                      ...+...|++.+|.+.|+.+......  --....-.+..++.+.|+++.|...+++..+.
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34566789999999999999865322  23446777888899999999999999998765

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

Probab=96.17  E-value=0.78  Score=45.83  Aligned_cols=236  Identities=12%  Similarity=0.040  Sum_probs=134.5

Q ss_pred             hhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHH
Q 045379           94 ATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSLHKKAEFTYLELLDSRCI-PTEDTYALLLKAY  164 (352)
Q Consensus        94 ~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~-p~~~~~~~li~~~  164 (352)
                      ..|..|...|....+..++.+.+....        .+....+.|++..++++|..+.-..-+.... .-...|.-+--.|
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yy  572 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYY  572 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccc
Confidence            356666666655544444444333222        7788888888988998888883222221110 0111233334445


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHH--HHHHHHhcCCHHH
Q 045379          165 CMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTL--MINLYGKASKSFM  242 (352)
Q Consensus       165 ~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~--li~~~~~~g~~~~  242 (352)
                      .+.++...+..-|+...... +-|...|..+..+|.++|++..|.++|.+...-  .|+. +|..  ....-+..|.+.+
T Consensus       573 Lea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s-~y~~fk~A~~ecd~GkYke  648 (1238)
T KOG1127|consen  573 LEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLS-KYGRFKEAVMECDNGKYKE  648 (1238)
T ss_pred             cCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHh-HHHHHHHHHHHHHhhhHHH
Confidence            66677777777777766653 456678888899999999999999999877654  3322 2222  2233466788888


Q ss_pred             HHHHHHHHHhC------CCCCCHHHHHHHHHHHHhcCCHHH-------HHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
Q 045379          243 ALKLFNEMRSH------KCKPNICTYTALVNAFAREGLCEE-------AEEIFEQLQGAGIEPDVYAYNALMEAYRLISR  309 (352)
Q Consensus       243 a~~l~~~m~~~------g~~p~~~t~~~li~~~~~~g~~~~-------a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~  309 (352)
                      |...+......      +..--..++-.+...+...|-..+       +.+.|.-.......-+...|-.+=++|.+|-.
T Consensus       649 ald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q  728 (1238)
T KOG1127|consen  649 ALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQ  728 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHH
Confidence            88888776442      111122334444444444444333       44444433334445566667777777877777


Q ss_pred             HhcCCCCCHHHHHHHHHHHHHcCCc
Q 045379          310 MHMGCEPDRASYNIMVDAYGRAGLH  334 (352)
Q Consensus       310 m~~~~~p~~~~~~~li~a~~~~g~~  334 (352)
                      .+.. .|+.....++..-+...|..
T Consensus       729 ~e~~-~vn~h~l~il~~q~e~~~~l  752 (1238)
T KOG1127|consen  729 EEPS-IVNMHYLIILSKQLEKTGAL  752 (1238)
T ss_pred             hccc-chHHHHHHHHHHHHHhcccC
Confidence            7522 55555554444434444433

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.12  E-value=0.52  Score=40.53  Aligned_cols=100  Identities=15%  Similarity=0.075  Sum_probs=44.3

Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCCHHHHH
Q 045379          187 PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKAS---KSFMALKLFNEMRSHKCKPNICTYT  263 (352)
Q Consensus       187 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~l~~~m~~~g~~p~~~t~~  263 (352)
                      -|...|-.|-..|...|+.+.|..-|.+-.+.- .++...+..+..++....   ...++..+|+++.... +-|..+..
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~  231 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALS  231 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHH
Confidence            344555555555555555555555555444321 223333333333332221   2244555555554432 12333344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          264 ALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       264 ~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      .|...+..+|++.+|...|+.|.+.
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhc
Confidence            4444455555555555555555543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.10  E-value=0.054  Score=36.14  Aligned_cols=51  Identities=14%  Similarity=0.063  Sum_probs=19.4

Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMR  251 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~  251 (352)
                      .+.+++++|.++++.+.+.+ +.+...+...-.++.+.|++++|.+.|+...
T Consensus         6 ~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    6 LQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             HhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            33344444444444433331 1133333333334444444444444444433

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

Probab=96.09  E-value=0.079  Score=45.33  Aligned_cols=100  Identities=18%  Similarity=0.157  Sum_probs=82.2

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHH
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQ  206 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  206 (352)
                      +-..+.+++++|+..|.+..+-.. -|.+-|..-..+|++.|.++.|++=-+.....+ +-...+|..|-.+|...|+++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P-~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDP-TNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCC-CcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHH
Confidence            446678999999999999998654 378888999999999999999998877776653 234678999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHH
Q 045379          207 KAVEIFQRMKRDCCQPSTETYTLM  230 (352)
Q Consensus       207 ~a~~~~~~m~~~~~~~~~~~~~~l  230 (352)
                      +|.+.|++.++.  .|+-.+|-.=
T Consensus       167 ~A~~aykKaLel--dP~Ne~~K~n  188 (304)
T KOG0553|consen  167 EAIEAYKKALEL--DPDNESYKSN  188 (304)
T ss_pred             HHHHHHHhhhcc--CCCcHHHHHH
Confidence            999999998875  6766666443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.07  E-value=0.062  Score=35.85  Aligned_cols=63  Identities=17%  Similarity=0.110  Sum_probs=52.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 045379          231 INLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYA  296 (352)
Q Consensus       231 i~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~  296 (352)
                      -..|.+.+++++|.+.++.+...+ +.+...+......+.+.|++++|.+.++...+.  .|+...
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~--~p~~~~   64 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL--SPDDPD   64 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH--CCCcHH
Confidence            357889999999999999998874 446667888899999999999999999999876  444433

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.00  E-value=0.62  Score=37.29  Aligned_cols=134  Identities=14%  Similarity=0.046  Sum_probs=94.5

Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC-CCCHHHHH
Q 045379          150 CIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC-QPSTETYT  228 (352)
Q Consensus       150 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~~~~  228 (352)
                      .-|++..-..|..+..+.|+..+|...|.+...--+-.|....-.+.++....+++..|...++++.+.+- .-+..+.-
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            44777777788888888888888888888877655566777777788888888888888888888877531 01223445


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          229 LMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       229 ~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      .+..++...|.+..|+.-|+...+.  -|+...-...-..+.++|+.+++..-+..+
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            5677788888888888888888765  455544444445556777766665544444

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.90  E-value=0.052  Score=51.10  Aligned_cols=113  Identities=20%  Similarity=0.209  Sum_probs=62.2

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 045379          161 LKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKS  240 (352)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  240 (352)
                      +..+..+|-.|.+.++-+++...    +..+...+...+.+...+..|-++|..|-+.         ..++..+...++|
T Consensus       723 i~i~~d~gW~d~lidI~rkld~~----ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W  789 (1081)
T KOG1538|consen  723 IEICGDHGWVDMLIDIARKLDKA----EREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRW  789 (1081)
T ss_pred             hhhhhcccHHHHHHHHHhhcchh----hhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccc
Confidence            34455556556555555544332    2244444444455556666666666666531         2345556666677


Q ss_pred             HHHHHHHHHHHhCCCCCCHH-----------HHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          241 FMALKLFNEMRSHKCKPNIC-----------TYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       241 ~~a~~l~~~m~~~g~~p~~~-----------t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      .+|..+-+...+.  .||..           -|.-.=.+|.++|+-.+|.++++++...
T Consensus       790 ~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  790 DEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            7776666655442  22221           1333445666777777777777777544

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

Probab=95.77  E-value=2.3  Score=42.09  Aligned_cols=166  Identities=17%  Similarity=0.130  Sum_probs=92.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      |..++-..|...|+.++|..+|++.....  |+......+..+|.+-+.+.+-.++-=+|-+ ..+-+...+-++++.+.
T Consensus        79 tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slil  155 (932)
T KOG2053|consen   79 TLQFLQNVYRDLGKLDEAVHLYERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLIL  155 (932)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHH
Confidence            55666666777777777777777766543  5566666666666666665544333333322 13333444444444443


Q ss_pred             cCCC----------HHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCCHHHHHHHH-HHHHhCCCCCCHHHHHHHHHH
Q 045379          201 KGGN----------PQKAVEIFQRMKRDC-CQPSTETYTLMINLYGKASKSFMALKLF-NEMRSHKCKPNICTYTALVNA  268 (352)
Q Consensus       201 ~~g~----------~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~l~-~~m~~~g~~p~~~t~~~li~~  268 (352)
                      ..-.          ..-|.+.++.+.+.+ -.-+..-.-.-....-..|++++|.+++ ....+.-...+...-+.-+..
T Consensus       156 qs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dl  235 (932)
T KOG2053|consen  156 QSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDL  235 (932)
T ss_pred             HhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            3211          234555666665543 1112222222233445667788888877 333333333444445566777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCC
Q 045379          269 FAREGLCEEAEEIFEQLQGAG  289 (352)
Q Consensus       269 ~~~~g~~~~a~~l~~~m~~~~  289 (352)
                      +...++|.+..++-.++...|
T Consensus       236 lk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  236 LKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHhcChHHHHHHHHHHHHhC
Confidence            777888888888888887764

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=95.74  E-value=0.81  Score=36.65  Aligned_cols=102  Identities=14%  Similarity=0.120  Sum_probs=86.9

Q ss_pred             CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCCHHH
Q 045379          185 LPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHK---CKPNICT  261 (352)
Q Consensus       185 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g---~~p~~~t  261 (352)
                      .-|++..--.|..+..+.|+..+|...|++...--+.-|....-.+.++....+++..|...++.+.+..   -.||  +
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~  162 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--G  162 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--c
Confidence            4678777778999999999999999999999876666788888899999999999999999999998753   2344  4


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          262 YTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       262 ~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      .-.+.+.+...|+.++|..-|+.....
T Consensus       163 ~Ll~aR~laa~g~~a~Aesafe~a~~~  189 (251)
T COG4700         163 HLLFARTLAAQGKYADAESAFEVAISY  189 (251)
T ss_pred             hHHHHHHHHhcCCchhHHHHHHHHHHh
Confidence            666778999999999999999998765

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=95.69  E-value=1.4  Score=38.86  Aligned_cols=220  Identities=12%  Similarity=0.098  Sum_probs=136.0

Q ss_pred             HHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 045379           72 FVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCI  151 (352)
Q Consensus        72 ~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~  151 (352)
                      ..-++|.++.|..=|+.+.....+-+....+..+.-..       ......-..+..+...|+...|+.....+.+..+ 
T Consensus       115 vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~-------~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~-  186 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALI-------QEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQP-  186 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhH-------HHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCc-
Confidence            34578888888887776642111111122222111110       0011223345556778999999999999998543 


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHH-H---
Q 045379          152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTET-Y---  227 (352)
Q Consensus       152 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~-~---  227 (352)
                      -|...|..-..+|...|.+..|+.=++...+..- .+..++--+-..+...|+.+.++...++-++.  .||-.. |   
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            5888888889999999999999887777666533 34455555666777888988888888887764  344322 1   


Q ss_pred             HH-------H--HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH---HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-H
Q 045379          228 TL-------M--INLYGKASKSFMALKLFNEMRSHKCKPNICT---YTALVNAFAREGLCEEAEEIFEQLQGAGIEPD-V  294 (352)
Q Consensus       228 ~~-------l--i~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t---~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~  294 (352)
                      -.       |  +......++|-++++-.+...+..-+.....   +..+-.++...|++.+|++.-.+..+-  .|| +
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            11       1  2334456777777777777766532212222   344556667788899999888888753  444 4


Q ss_pred             HHHHHHHHHH
Q 045379          295 YAYNALMEAY  304 (352)
Q Consensus       295 ~~~~~li~a~  304 (352)
                      .++---.+||
T Consensus       342 ~~l~dRAeA~  351 (504)
T KOG0624|consen  342 QVLCDRAEAY  351 (504)
T ss_pred             HHHHHHHHHH
Confidence            4444444444

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.62  E-value=0.73  Score=35.28  Aligned_cols=126  Identities=11%  Similarity=0.057  Sum_probs=88.8

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKG  202 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  202 (352)
                      ..++..+.+.+....+..+++.+...+. .+....+.++..|++.+ .+...+.++.      ..+......+++.|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            4567778888899999999999998774 68889999999999864 3444444442      12334455688888888


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 045379          203 GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKA-SKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR  271 (352)
Q Consensus       203 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~  271 (352)
                      +.++++.-++.++..     .......    +... ++++.|.+.+.+-      .+...|..++..+..
T Consensus        83 ~l~~~~~~l~~k~~~-----~~~Al~~----~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l~  137 (140)
T smart00299       83 KLYEEAVELYKKDGN-----FKDAIVT----LIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALLD  137 (140)
T ss_pred             CcHHHHHHHHHhhcC-----HHHHHHH----HHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHHc
Confidence            889999988888753     2223333    3334 7888888877752      256678888877654

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

Probab=95.55  E-value=1  Score=41.82  Aligned_cols=164  Identities=14%  Similarity=0.042  Sum_probs=116.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH------
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNS------  194 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~------  194 (352)
                      -...+.++..+..++..|.+-+....+..  -+..-++..-.++...|.+.+....-+...+.|-. ...-|+.      
T Consensus       226 ~ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~  302 (539)
T KOG0548|consen  226 KEKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALA  302 (539)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHH
Confidence            56678888888899999999999888755  45556677778888888888777766666555421 1122222      


Q ss_pred             -HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHH-------------------------HHHHHHHHhcCCHHHHHHHHH
Q 045379          195 -YIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETY-------------------------TLMINLYGKASKSFMALKLFN  248 (352)
Q Consensus       195 -li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~-------------------------~~li~~~~~~g~~~~a~~l~~  248 (352)
                       +-.+|.+.++++.+...|++.......|+..+-                         ..=-+.+.+.|++..|++.+.
T Consensus       303 r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~Yt  382 (539)
T KOG0548|consen  303 RLGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYT  382 (539)
T ss_pred             HhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHH
Confidence             333566677888888888876654434433221                         112456678899999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          249 EMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       249 ~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      ++.... +-|...|..-..+|.+.|++..|+.=.+...+.
T Consensus       383 eAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL  421 (539)
T KOG0548|consen  383 EAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIEL  421 (539)
T ss_pred             HHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            988775 557788999999999999999988876666544

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.49  E-value=1.3  Score=37.15  Aligned_cols=201  Identities=12%  Similarity=0.035  Sum_probs=115.0

Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHhcCCC---CchhhHHHHHHHHHHHh----hccCcchhhHHhHHHHHHHHHHHccCCH
Q 045379           63 SPTAQQILRFVQREVDSNTIWDAFDSLP---PTHATWDDLINVSVQLR----LNKKWDPIVLMSCVSILLIEAYGQKSLH  135 (352)
Q Consensus        63 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~l~~~~~~~~----~~~~~~~~~~~~~~~~~li~~~~~~g~~  135 (352)
                      ...|..-..+|....++++|...+.+--   .+-.+|-....++.+.+    ....+.++..   .|+.-...|..+|..
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfhAAKayEqaamLake~~klsEvvd---l~eKAs~lY~E~Gsp  107 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFHAAKAYEQAAMLAKELSKLSEVVD---LYEKASELYVECGSP  107 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHhHHHHH---HHHHHHHHHHHhCCc
Confidence            3366667778888888998877665432   23333333333333322    2222222222   556666666777766


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC---C--CCCCHHHHHHHHHHHHcCCCHHHHHH
Q 045379          136 KKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY---G--LPPSAVVYNSYIDGLLKGGNPQKAVE  210 (352)
Q Consensus       136 ~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g--~~~~~~~~~~li~~~~~~g~~~~a~~  210 (352)
                      +.|--.+++.-+                .....++++|+++|.+...-   +  ...-...+..+-+.+.+..++++|-.
T Consensus       108 dtAAmaleKAak----------------~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~  171 (308)
T KOG1585|consen  108 DTAAMALEKAAK----------------ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAAT  171 (308)
T ss_pred             chHHHHHHHHHH----------------HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHH
Confidence            666555544332                22345566666666664321   1  01112334555566777777777766


Q ss_pred             HHHHHHHc----CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 045379          211 IFQRMKRD----CCQPST-ETYTLMINLYGKASKSFMALKLFNEMRSHK---CKPNICTYTALVNAFAREGLCEEAEEIF  282 (352)
Q Consensus       211 ~~~~m~~~----~~~~~~-~~~~~li~~~~~~g~~~~a~~l~~~m~~~g---~~p~~~t~~~li~~~~~~g~~~~a~~l~  282 (352)
                      .|.+-...    .-.++. ..|-..|-.|.-..++..|.+.++.-.+.+   -.-+..+...|+.+| ..|+.+++..+.
T Consensus       172 a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  172 AFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            66543321    112222 346667777888889999999999855432   234567888899888 567878776665


Q ss_pred             H
Q 045379          283 E  283 (352)
Q Consensus       283 ~  283 (352)
                      .
T Consensus       251 ~  251 (308)
T KOG1585|consen  251 S  251 (308)
T ss_pred             c
Confidence            3

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.45  E-value=0.3  Score=44.64  Aligned_cols=64  Identities=19%  Similarity=0.153  Sum_probs=45.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSA----VVYNSYIDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      +...++.+..+|...|++++|...|++..+.  .|+.    .+|..+..+|...|+.++|...+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4567777777777777777777777777664  3442    34777777777777777777777777664

>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=95.43  E-value=0.54  Score=43.71  Aligned_cols=130  Identities=17%  Similarity=0.096  Sum_probs=78.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 045379          122 SILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK  201 (352)
Q Consensus       122 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  201 (352)
                      .+.++..+-+.|..+.|+++-..-.            .-.+...+.|+++.|.++.++      .++...|..|-+...+
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~AL~  359 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDIALEIAKE------LDDPEKWKQLGDEALR  359 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHHHHHHCCC------CSTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHHHHHHHHh------cCcHHHHHHHHHHHHH
Confidence            4556666777777777765543322            123445566777777766443      2355677777777777


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 045379          202 GGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEI  281 (352)
Q Consensus       202 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l  281 (352)
                      +|+++-|++.|++..         -|..|+--|.-.|+.+...++.+.....|-      ++....++.-.|++++..++
T Consensus       360 ~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~l  424 (443)
T PF04053_consen  360 QGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDL  424 (443)
T ss_dssp             TTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHH
T ss_pred             cCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHH
Confidence            777777777777765         255666666777777776666666665542      55555555666777766666


Q ss_pred             HHH
Q 045379          282 FEQ  284 (352)
Q Consensus       282 ~~~  284 (352)
                      +.+
T Consensus       425 L~~  427 (443)
T PF04053_consen  425 LIE  427 (443)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=95.39  E-value=1.5  Score=37.31  Aligned_cols=165  Identities=13%  Similarity=0.098  Sum_probs=99.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH---HHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVY---NSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTL  229 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  229 (352)
                      ++..+-.....+...|++++|.+.|+++...-- -+....   -.+..+|.+.+++++|...+++..+..-.-...-+-.
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP-~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~  109 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYP-FGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVL  109 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHH
Confidence            444444455556778999999999999988532 222332   3466788999999999999999987632111223333


Q ss_pred             HHHHHHh--c---------------CC---HHHHHHHHHHHHhCCCCCCHH------HH------------HHHHHHHHh
Q 045379          230 MINLYGK--A---------------SK---SFMALKLFNEMRSHKCKPNIC------TY------------TALVNAFAR  271 (352)
Q Consensus       230 li~~~~~--~---------------g~---~~~a~~l~~~m~~~g~~p~~~------t~------------~~li~~~~~  271 (352)
                      .+.+.+.  .               .+   ..+|++.|+++.+.  =|++.      ..            -.+...|.+
T Consensus       110 Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~  187 (243)
T PRK10866        110 YMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTK  187 (243)
T ss_pred             HHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333221  1               12   24566777777654  23332      11            122233555


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          272 EGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       272 ~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .|.+..|..-++.+.+.  -|                    +-+........++.+|...|..++|.+...
T Consensus       188 ~~~y~AA~~r~~~v~~~--Yp--------------------~t~~~~eal~~l~~ay~~lg~~~~a~~~~~  236 (243)
T PRK10866        188 RGAYVAVVNRVEQMLRD--YP--------------------DTQATRDALPLMENAYRQLQLNAQADKVAK  236 (243)
T ss_pred             cCchHHHHHHHHHHHHH--CC--------------------CCchHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            56665555555555543  11                    123355666788899999999999988754

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.34  E-value=1.3  Score=36.44  Aligned_cols=178  Identities=15%  Similarity=0.143  Sum_probs=97.1

Q ss_pred             HHHHHHHhcCCHHHHHHHhcCCC---Cc-hhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHH
Q 045379           68 QILRFVQREVDSNTIWDAFDSLP---PT-HATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYL  143 (352)
Q Consensus        68 ~l~~~~~~~g~~~~A~~~~~~~~---~~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~  143 (352)
                      .....+...|++++|...|+.+.   |+ ...=.                       +.-.++.++.+.|++++|...++
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~-----------------------A~l~la~a~y~~~~y~~A~~~~~   66 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQ-----------------------AQLMLAYAYYKQGDYEEAIAAYE   66 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHH-----------------------HHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHH-----------------------HHHHHHHHHHHcCCHHHHHHHHH
Confidence            34455567899999999998763   21 11111                       34456788999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC
Q 045379          144 ELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLP---PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC  220 (352)
Q Consensus       144 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  220 (352)
                      ++.+.-+.-...-+...+.+.+.........     .......   --...+..++.-|=...-..+|...+..+.+.  
T Consensus        67 ~fi~~yP~~~~~~~A~Y~~g~~~~~~~~~~~-----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~--  139 (203)
T PF13525_consen   67 RFIKLYPNSPKADYALYMLGLSYYKQIPGIL-----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR--  139 (203)
T ss_dssp             HHHHH-TT-TTHHHHHHHHHHHHHHHHHHHH------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH--
T ss_pred             HHHHHCCCCcchhhHHHHHHHHHHHhCccch-----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH--
Confidence            9987543322223333333332211111110     0000000   00134555555566666666666666655542  


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHHHHH
Q 045379          221 QPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNI----CTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       221 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~----~t~~~li~~~~~~g~~~~a~  279 (352)
                        =..---.+..-|.+.|.+..|..-++.+.+.  =|++    .....++.+|.+.|..+.+.
T Consensus       140 --la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  140 --LAEHELYIARFYYKRGKYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             --HHHHHHHHHHHHHCTT-HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             --HHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence              0111123566788888888888888888764  2333    34577778888888777443

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

Probab=95.28  E-value=0.98  Score=43.65  Aligned_cols=82  Identities=15%  Similarity=0.110  Sum_probs=54.2

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH---HHHHH---hcCCCCCHHHHHHHHHHHH
Q 045379          256 KPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR---LISRM---HMGCEPDRASYNIMVDAYG  329 (352)
Q Consensus       256 ~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~---~~~~m---~~~~~p~~~~~~~li~a~~  329 (352)
                      ....-+.+--+..+...|+..+|.++-.+.+    .||-..|..=+.+++   -|+++   .+. +-.+.-|.=.+.+|.
T Consensus       681 ~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAks-kksPIGy~PFVe~c~  755 (829)
T KOG2280|consen  681 SFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKS-KKSPIGYLPFVEACL  755 (829)
T ss_pred             ccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhc-cCCCCCchhHHHHHH
Confidence            3344456666667777777777777777765    677777777777776   22222   111 222556777888889


Q ss_pred             HcCCcchhHHHHH
Q 045379          330 RAGLHEGKCSYSL  342 (352)
Q Consensus       330 ~~g~~~~A~~~~~  342 (352)
                      +.|+.+||.+++.
T Consensus       756 ~~~n~~EA~KYip  768 (829)
T KOG2280|consen  756 KQGNKDEAKKYIP  768 (829)
T ss_pred             hcccHHHHhhhhh
Confidence            9999999988864

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

Probab=95.21  E-value=2.4  Score=38.76  Aligned_cols=147  Identities=16%  Similarity=0.194  Sum_probs=112.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHH-HHH
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYG-LPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETY-TLM  230 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~-~~l  230 (352)
                      -...|...|.+-.+..-.+.|..+|-+..+.| +.+++.+++++|..++ .|+...|..+|+-=...  -||...| +-.
T Consensus       396 ~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~ky  472 (660)
T COG5107         396 LTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKY  472 (660)
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHH
Confidence            45577888888888888999999999999998 6788899999998665 56888999999864433  3454444 567


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          231 INLYGKASKSFMALKLFNEMRSHKCKPN--ICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR  305 (352)
Q Consensus       231 i~~~~~~g~~~~a~~l~~~m~~~g~~p~--~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~  305 (352)
                      +.-+...++-+.|..+|+.-... +..+  ...|..+|..=..-|++..+..+-+.|.+.  .|...+.......|+
T Consensus       473 l~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~  546 (660)
T COG5107         473 LLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHh
Confidence            77788889999999999954332 1122  457999999999999999998888888764  666666666666665

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.16  E-value=1.5  Score=41.34  Aligned_cols=184  Identities=16%  Similarity=0.152  Sum_probs=113.5

Q ss_pred             ccccccccCcCcCcchhHHHHHHHHHhcCCHHHHHHHhcCCCC--chhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHH
Q 045379           49 KYGSGFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPP--THATWDDLINVSVQLRLNKKWDPIVLMSCVSILLI  126 (352)
Q Consensus        49 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li  126 (352)
                      .++-++..=....++|....|+...+=.||=+.+++.+.....  +...-   +...              ....|+..+
T Consensus       174 ~~G~G~f~L~lSlLPp~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~---la~L--------------~LL~y~~~~  236 (468)
T PF10300_consen  174 YFGFGLFNLVLSLLPPKVLKLLSFVGFSGDRELGLRLLWEASKSENIRSP---LAAL--------------VLLWYHLVV  236 (468)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchH---HHHH--------------HHHHHHHHH
Confidence            3444444444445566667777777777777777776654321  11110   0000              001566666


Q ss_pred             HHHHc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHHcCCHHHHHHHHHHHHHC--CC-CCCHHHHHHHHHH
Q 045379          127 EAYGQ----KSLHKKAEFTYLELLDSRCIPTEDTYALLL-KAYCMSGLLEKAEAVFREMRKY--GL-PPSAVVYNSYIDG  198 (352)
Q Consensus       127 ~~~~~----~g~~~~a~~l~~~m~~~~~~p~~~~~~~li-~~~~~~g~~~~a~~~~~~m~~~--g~-~~~~~~~~~li~~  198 (352)
                      ..+.-    ....+.|.+++..+.++-  |+...|...- +.+...|++++|.+.|+.....  .. ......+--+...
T Consensus       237 ~~~~~~~~~~~~~~~a~~lL~~~~~~y--P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~  314 (468)
T PF10300_consen  237 PSFLGIDGEDVPLEEAEELLEEMLKRY--PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWC  314 (468)
T ss_pred             HHHcCCcccCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHH
Confidence            55444    467889999999998754  7766665443 4566789999999999976532  11 1122334456666


Q ss_pred             HHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHHhcCCH-------HHHHHHHHHHHh
Q 045379          199 LLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMI-NLYGKASKS-------FMALKLFNEMRS  252 (352)
Q Consensus       199 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li-~~~~~~g~~-------~~a~~l~~~m~~  252 (352)
                      +.-..+|++|...|..+.+.. .-+...|.-+. .++...|+.       ++|.++|.+...
T Consensus       315 ~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  315 HMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            888899999999999998753 22344444433 334456766       888888888754

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.

>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=95.10  E-value=1.3  Score=35.03  Aligned_cols=136  Identities=13%  Similarity=0.104  Sum_probs=89.2

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 045379          139 EFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       139 ~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      .+.++.+.+.+++|+...+..+++.+.+.|++...    .++.+.++-+|.......+-.+..  ....+.++=-+|.++
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            45566667788999999999999999999986654    445556666666666655544433  233344444444432


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          219 CCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       219 ~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                          =...+..++..+...|++-+|.++.+.....    +......++.+-.+.++...-..+|+-..+.
T Consensus        88 ----L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   88 ----LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             ----hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                1114667788888999999999988875332    2223355677777777777666666666553

>PRK15331 chaperone protein SicA; Provisional

Probab=95.08  E-value=1.2  Score=34.93  Aligned_cols=87  Identities=10%  Similarity=-0.030  Sum_probs=54.4

Q ss_pred             HHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 045379          199 LLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEA  278 (352)
Q Consensus       199 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  278 (352)
                      +...|++++|+.+|.-+.-.++ -+..-|..|-.+|-..+++++|+..|......+ .-|...+-..-.+|...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHHH
Confidence            4456777777777776655432 244555666666666777777777776654443 23444455556666777777777


Q ss_pred             HHHHHHHHH
Q 045379          279 EEIFEQLQG  287 (352)
Q Consensus       279 ~~l~~~m~~  287 (352)
                      ...|....+
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            777777665

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.08  E-value=0.17  Score=46.23  Aligned_cols=99  Identities=14%  Similarity=0.087  Sum_probs=74.0

Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 045379          186 PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPST----ETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICT  261 (352)
Q Consensus       186 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t  261 (352)
                      +.+...++.+-.+|.+.|++++|...|++.++.  .|+.    .+|..+..+|...|+.++|++.+++..+.+ .|   .
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n~---~  145 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-NL---K  145 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-ch---h
Confidence            456788999999999999999999999998886  4553    469999999999999999999999998752 11   2


Q ss_pred             HHHHHH--HHHhcCCHHHHHHHHHHHHHCCC
Q 045379          262 YTALVN--AFAREGLCEEAEEIFEQLQGAGI  290 (352)
Q Consensus       262 ~~~li~--~~~~~g~~~~a~~l~~~m~~~~~  290 (352)
                      |..+..  .+..-.+.++..++++.+.+.|.
T Consensus       146 f~~i~~DpdL~plR~~pef~eLlee~rk~G~  176 (453)
T PLN03098        146 FSTILNDPDLAPFRASPEFKELQEEARKGGE  176 (453)
T ss_pred             HHHHHhCcchhhhcccHHHHHHHHHHHHhCC
Confidence            321111  11122344577788888887764

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.02  E-value=0.52  Score=40.54  Aligned_cols=99  Identities=12%  Similarity=0.088  Sum_probs=65.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHHcCCCCCHHHHHH
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGG---NPQKAVEIFQRMKRDCCQPSTETYTL  229 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~~~~~~~~~  229 (352)
                      |...|..|-.+|...|+.+.|..-|....+.. +++...+..+..++..+.   .-.++..+|++..... +-++.+...
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHHH
Confidence            66677777777777777777777777776642 344455555544444332   2456777777777654 235666667


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          230 MINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       230 li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      |-..+...|++.+|...|+.|.+.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhc
Confidence            777777778888888888777765

>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=95.01  E-value=1.1  Score=33.71  Aligned_cols=66  Identities=23%  Similarity=0.317  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 045379          224 TETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGI  290 (352)
Q Consensus       224 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~  290 (352)
                      ..-.+..+.....+|+-+.-.++..++.+. -++++...-.+..+|.+.|+..++.+++++.-+.|+
T Consensus        86 se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   86 SEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             -HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            344566677777888888888888877653 367777777888888888888888888888887775

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

>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=94.92  E-value=0.78  Score=42.67  Aligned_cols=131  Identities=11%  Similarity=-0.024  Sum_probs=88.3

Q ss_pred             HHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 045379           96 WDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEA  175 (352)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  175 (352)
                      .+.+++-+.+.|..+.+..+...   -..-.+...+.|+++.|.++-++.      ++...|..|-+.+.++|+++.|++
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D---~~~rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~  368 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTD---PDHRFELALQLGNLDIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEE  368 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS----HHHHHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCC---hHHHhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHH
Confidence            44444444444444443333332   133445667889999998665443      578899999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          176 VFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       176 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      .|.+..         -+..|+-.|.-.|+.+.-.++-+.....|      -+|....++.-.|+.++..+++.+-
T Consensus       369 c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~------~~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  369 CYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAEERG------DINIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             HHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             HHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHHHcc------CHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            998853         46677778888999888888887777665      3666667777778888888877653

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.

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

Probab=94.91  E-value=0.47  Score=38.11  Aligned_cols=62  Identities=15%  Similarity=0.072  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTE--DTYALLLKAYCMSGLLEKAEAVFREMRK  182 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~  182 (352)
                      .+..+.+.|.+.|+.++|.+.|.++.+....|..  ..+-.+|..+.-.+++..+.....+...
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            7788889999999999999999998876554443  3677888888889999988888777654

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.76  E-value=1.2  Score=38.95  Aligned_cols=128  Identities=13%  Similarity=0.229  Sum_probs=85.2

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc--CC----CHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHhcCCH
Q 045379          170 LEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK--GG----NPQKAVEIFQRMKRDCC---QPSTETYTLMINLYGKASKS  240 (352)
Q Consensus       170 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~--~g----~~~~a~~~~~~m~~~~~---~~~~~~~~~li~~~~~~g~~  240 (352)
                      +++...+++.|.+.|++-+..+|-+.......  ..    ...+|..+|+.|++...   .++-.++..|+..  ..++.
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            45667889999999998887777654333333  22    35679999999998642   2344556666554  44443


Q ss_pred             ----HHHHHHHHHHHhCCCCCCHH--HHHHHHHHHHhcCC--HHHHHHHHHHHHHCCCCCCHHHHHH
Q 045379          241 ----FMALKLFNEMRSHKCKPNIC--TYTALVNAFAREGL--CEEAEEIFEQLQGAGIEPDVYAYNA  299 (352)
Q Consensus       241 ----~~a~~l~~~m~~~g~~p~~~--t~~~li~~~~~~g~--~~~a~~l~~~m~~~~~~p~~~~~~~  299 (352)
                          +.++.+|+.+.+.|...+-.  ..+.++..+.....  +.++.++++.+.+.|+++....|..
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~  222 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPT  222 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccH
Confidence                66788888888878764433  33444443332222  5589999999999999887766654

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

Probab=94.74  E-value=4.3  Score=39.28  Aligned_cols=30  Identities=10%  Similarity=0.004  Sum_probs=18.4

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          313 GCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       313 ~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .+.|....|+.|..+-+....+...-+-|.
T Consensus      1052 d~lpP~eiySllALaaca~raFGtCSKAfm 1081 (1189)
T KOG2041|consen 1052 DFLPPAEIYSLLALAACAVRAFGTCSKAFM 1081 (1189)
T ss_pred             hcCCHHHHHHHHHHHHhhhhhhhhhHHHHH
Confidence            456777777777666666555555544443

>PRK15331 chaperone protein SicA; Provisional

Probab=94.62  E-value=0.96  Score=35.49  Aligned_cols=90  Identities=12%  Similarity=-0.077  Sum_probs=60.2

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 045379          126 IEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNP  205 (352)
Q Consensus       126 i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  205 (352)
                      ..-+...|++++|..+|.-+.-.++- +..-|..|..+|-..++++.|...|...-..+. -|...+-..-.+|...|+.
T Consensus        44 Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCH
Confidence            33456778888888888877765432 445566666667777888888888777655432 3334444556677777888


Q ss_pred             HHHHHHHHHHHH
Q 045379          206 QKAVEIFQRMKR  217 (352)
Q Consensus       206 ~~a~~~~~~m~~  217 (352)
                      +.|...|+...+
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            888888777776

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.54  E-value=4.2  Score=38.29  Aligned_cols=163  Identities=21%  Similarity=0.115  Sum_probs=110.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCCC-----HHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSR-CIPT-----EDTYALLLKAYCM----SGLLEKAEAVFREMRKYGLPPSAV  190 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~-~~p~-----~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~  190 (352)
                      ....+++..+=.||-+.+++++.+..+.+ +.-.     .-.|+.++..++.    ....+.+.++++.+.++  -|+..
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~  267 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSA  267 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcH
Confidence            66677788888999999999998877543 3311     1245555554444    34678899999999886  46655


Q ss_pred             HHHH-HHHHHHcCCCHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 045379          191 VYNS-YIDGLLKGGNPQKAVEIFQRMKRDCC---QPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALV  266 (352)
Q Consensus       191 ~~~~-li~~~~~~g~~~~a~~~~~~m~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li  266 (352)
                      .|.. --+.+...|++++|.+.|++......   ......+--+.-.+.-.++|++|.+.|..+.+.. .-+..+|.-+.
T Consensus       268 lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~  346 (468)
T PF10300_consen  268 LFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLA  346 (468)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHH
Confidence            5553 34556678999999999997553110   1123344456667888899999999999998753 23344444443


Q ss_pred             HH-HHhcCCH-------HHHHHHHHHHH
Q 045379          267 NA-FAREGLC-------EEAEEIFEQLQ  286 (352)
Q Consensus       267 ~~-~~~~g~~-------~~a~~l~~~m~  286 (352)
                      .+ +...|+.       ++|.++|.+..
T Consensus       347 a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  347 AACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            33 3346766       88999998874

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.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.37  E-value=2.8  Score=35.57  Aligned_cols=146  Identities=11%  Similarity=0.037  Sum_probs=104.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHH-----H
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTL-----M  230 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~-----l  230 (352)
                      ..+.++....-.|.+.-...++++.++..-+.++.....|.+.-.+.|+.+.|...|++..+..-..|..++++     .
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            34555666666778888888999998877677788888999999999999999999998876433444444443     3


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          231 INLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAY  304 (352)
Q Consensus       231 i~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~  304 (352)
                      -..|.-++++.+|...+.+..... ..|+...|.=.-...-.|+..+|.+.+..|.+.  .|...+-++++-.+
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~~~nL  329 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESVLFNL  329 (366)
T ss_pred             hhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhHHHHH
Confidence            455667788888998888876543 234444454444445578999999999999865  56666655555333

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.36  E-value=3  Score=42.70  Aligned_cols=160  Identities=11%  Similarity=0.078  Sum_probs=80.8

Q ss_pred             CHHHHHHHhcCCCCchhhHHHHHHHHHHH---hhccCcchhhHHhHHHHHHHHHHHccC--CHHHHHHHHHHHH--hCC-
Q 045379           78 DSNTIWDAFDSLPPTHATWDDLINVSVQL---RLNKKWDPIVLMSCVSILLIEAYGQKS--LHKKAEFTYLELL--DSR-  149 (352)
Q Consensus        78 ~~~~A~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~l~~~m~--~~~-  149 (352)
                      |++-|..+-++.+.|+.-|-.+++-+-++   .+.-+++..+.   -|...+....+.|  -++++..+.++=.  ..+ 
T Consensus       852 Dl~Lal~VAq~SqkDPkEyLP~L~el~~m~~~~rkF~ID~~L~---ry~~AL~hLs~~~~~~~~e~~n~I~kh~Ly~~aL  928 (1265)
T KOG1920|consen  852 DLDLALLVAQKSQKDPKEYLPFLNELKKMETLLRKFKIDDYLK---RYEDALSHLSECGETYFPECKNYIKKHGLYDEAL  928 (1265)
T ss_pred             chHHHHHHHHHhccChHHHHHHHHHHhhchhhhhheeHHHHHH---HHHHHHHHHHHcCccccHHHHHHHHhcccchhhh
Confidence            34444444444455555555555544321   11111222221   3444444444444  3444444332211  001 


Q ss_pred             --CCCCHHHHHHHHHHHH----HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC
Q 045379          150 --CIPTEDTYALLLKAYC----MSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPS  223 (352)
Q Consensus       150 --~~p~~~~~~~li~~~~----~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~  223 (352)
                        .+|+...+..+..+|+    +.+.+++|--.|+..-+         ..-.+.+|..+|+|++|..+..++...   -+
T Consensus       929 ~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~---~d  996 (1265)
T KOG1920|consen  929 ALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEG---KD  996 (1265)
T ss_pred             heeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCC---HH
Confidence              2467766666665554    34566666655554321         223456677777777777777776532   12


Q ss_pred             HHH--HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          224 TET--YTLMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       224 ~~~--~~~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      ...  -..|++-+...+++-+|-++..+..+
T Consensus       997 e~~~~a~~L~s~L~e~~kh~eAa~il~e~~s 1027 (1265)
T KOG1920|consen  997 ELVILAEELVSRLVEQRKHYEAAKILLEYLS 1027 (1265)
T ss_pred             HHHHHHHHHHHHHHHcccchhHHHHHHHHhc
Confidence            222  25577777777777777777766543

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=94.17  E-value=3.8  Score=36.22  Aligned_cols=266  Identities=14%  Similarity=0.069  Sum_probs=166.8

Q ss_pred             HHhcCCHHHHHHHhcCC-CCchhhHHHHHH---HHHHHhhccCcchhhHHhH-----HHHH---HHHHHHccCCHHHHHH
Q 045379           73 VQREVDSNTIWDAFDSL-PPTHATWDDLIN---VSVQLRLNKKWDPIVLMSC-----VSIL---LIEAYGQKSLHKKAEF  140 (352)
Q Consensus        73 ~~~~g~~~~A~~~~~~~-~~~~~~~~~l~~---~~~~~~~~~~~~~~~~~~~-----~~~~---li~~~~~~g~~~~a~~  140 (352)
                      +.-.|.+.+|+.-|... .-|+..|.++.+   .|..+|+...+..=+....     -+.+   -...+.++|.+++|..
T Consensus        48 lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~Gele~A~~  127 (504)
T KOG0624|consen   48 LLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQGELEQAEA  127 (504)
T ss_pred             HHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhcccHHHHHH
Confidence            33445566666555543 245555655544   3445554433222111111     1222   2245778999999999


Q ss_pred             HHHHHHhCCCC------------CCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHH
Q 045379          141 TYLELLDSRCI------------PTEDT--YALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQ  206 (352)
Q Consensus       141 l~~~m~~~~~~------------p~~~~--~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  206 (352)
                      =|+.+.+....            +....  ....+..+...|+...|++....+.+. .+.+...|..-..+|...|.+.
T Consensus       128 DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi-~~Wda~l~~~Rakc~i~~~e~k  206 (504)
T KOG0624|consen  128 DFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEI-QPWDASLRQARAKCYIAEGEPK  206 (504)
T ss_pred             HHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhc-CcchhHHHHHHHHHHHhcCcHH
Confidence            99999875431            11112  223445566678999999999998886 3567888888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH----HHH-------H--HHHHHhcC
Q 045379          207 KAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICT----YTA-------L--VNAFAREG  273 (352)
Q Consensus       207 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t----~~~-------l--i~~~~~~g  273 (352)
                      .|+.=++...+.. ..++.++--+-..+...|+.+.++...++..+.  .||-..    |..       |  +......+
T Consensus       207 ~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~  283 (504)
T KOG0624|consen  207 KAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEK  283 (504)
T ss_pred             HHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            9998887766543 335666767778888999999999999888765  344321    211       1  12345678


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHH---HHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHH
Q 045379          274 LCEEAEEIFEQLQGAGIEPDVYAYNALM---EAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSY  340 (352)
Q Consensus       274 ~~~~a~~l~~~m~~~~~~p~~~~~~~li---~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~  340 (352)
                      +|.++++-.+...+.........|+..=   ..+.          .-++...--+.|..++.--.+||.-...+++|..-
T Consensus       284 ~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~d  363 (504)
T KOG0624|consen  284 HWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHD  363 (504)
T ss_pred             hHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            8888888888887664332333343322   1111          12222112233588888888899988889998887


Q ss_pred             HH
Q 045379          341 SL  342 (352)
Q Consensus       341 ~~  342 (352)
                      |.
T Consensus       364 ye  365 (504)
T KOG0624|consen  364 YE  365 (504)
T ss_pred             HH
Confidence            75

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.12  E-value=1.3  Score=37.67  Aligned_cols=96  Identities=18%  Similarity=0.156  Sum_probs=50.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCC-CHHHHHHHHH
Q 045379          122 SILLIEAYGQKSLHKKAEFTYLELLDSRCI--PTEDTYALLLKAYCMSGLLEKAEAVFREMRKY-GLPP-SAVVYNSYID  197 (352)
Q Consensus       122 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~-~~~~~~~li~  197 (352)
                      |+.-++.+ +.|++.+|...|....+....  -....+--|..++..+|++++|..+|..+.+. +-.| -...+--|..
T Consensus       145 Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~  223 (262)
T COG1729         145 YNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGV  223 (262)
T ss_pred             HHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHH
Confidence            55544433 445566666666666654321  12234444566666666666666666665543 1111 1234444445


Q ss_pred             HHHcCCCHHHHHHHHHHHHHc
Q 045379          198 GLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       198 ~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      ...+.|+.++|...|+++.+.
T Consensus       224 ~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         224 SLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHhcCHHHHHHHHHHHHHH
Confidence            555666666666666666554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.01  E-value=2.1  Score=38.56  Aligned_cols=94  Identities=10%  Similarity=-0.025  Sum_probs=60.5

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 045379          190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAF  269 (352)
Q Consensus       190 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~  269 (352)
                      ..+..+.-+|.+.+++..|++.-++.++.+ ++|....--=-.+|...|+++.|...|+.+.+.  .|+-...+.=+..|
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l  334 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKL  334 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHH
Confidence            566677777888888888888888777664 446666555667777778888888888887764  45554444433333


Q ss_pred             H-hcCC-HHHHHHHHHHHH
Q 045379          270 A-REGL-CEEAEEIFEQLQ  286 (352)
Q Consensus       270 ~-~~g~-~~~a~~l~~~m~  286 (352)
                      . +... .+...++|..|.
T Consensus       335 ~~k~~~~~~kekk~y~~mF  353 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMF  353 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHh
Confidence            3 3222 233466666664

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

Probab=93.89  E-value=0.96  Score=38.98  Aligned_cols=79  Identities=15%  Similarity=0.166  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 045379          224 TETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG-----AGIEPDVYAYN  298 (352)
Q Consensus       224 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~-----~~~~p~~~~~~  298 (352)
                      ..++..++..+...|+.+.+...++++.... +-+...|..+|.+|.+.|+...|...|+++.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            3466677777777777777777777776553 45666777777777777777777777777654     37777776666


Q ss_pred             HHHHH
Q 045379          299 ALMEA  303 (352)
Q Consensus       299 ~li~a  303 (352)
                      ....+
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            66555

>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=93.80  E-value=4.1  Score=35.38  Aligned_cols=168  Identities=16%  Similarity=0.108  Sum_probs=102.4

Q ss_pred             HHhcCCHHHHHHHhcCCCC-----chhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 045379           73 VQREVDSNTIWDAFDSLPP-----THATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLD  147 (352)
Q Consensus        73 ~~~~g~~~~A~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  147 (352)
                      ..+.|+.+.|...+.+.+.     ++...-.+...                  .||.-.+.+.+..++++|..++++..+
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~------------------~yn~G~~l~~~~~~~~~a~~wL~~a~~   64 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARV------------------CYNIGKSLLSKKDKYEEAVKWLQRAYD   64 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHH------------------HHHHHHHHHHcCCChHHHHHHHHHHHH
Confidence            3578999999999887752     22222111111                  556656666555588888777776543


Q ss_pred             C--------CCCCCH-----HHHHHHHHHHHHcCCHH---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 045379          148 S--------RCIPTE-----DTYALLLKAYCMSGLLE---KAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEI  211 (352)
Q Consensus       148 ~--------~~~p~~-----~~~~~li~~~~~~g~~~---~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  211 (352)
                      .        ...|+.     .++..++.++...+..+   .|..+++.+... .+-...++-.-++.+.+.++.+.+.++
T Consensus        65 ~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~  143 (278)
T PF08631_consen   65 ILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEI  143 (278)
T ss_pred             HHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHH
Confidence            2        223443     35667777887777655   455566666444 222346666777777778999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCCCCHH
Q 045379          212 FQRMKRDCCQPSTETYTLMINLYGKA--SKSFMALKLFNEMRSHKCKPNIC  260 (352)
Q Consensus       212 ~~~m~~~~~~~~~~~~~~li~~~~~~--g~~~~a~~l~~~m~~~g~~p~~~  260 (352)
                      +.+|...- ......+..++..+...  .....|...++.+....+.|...
T Consensus       144 L~~mi~~~-~~~e~~~~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~  193 (278)
T PF08631_consen  144 LMRMIRSV-DHSESNFDSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSED  193 (278)
T ss_pred             HHHHHHhc-ccccchHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChh
Confidence            99998762 21345566655555222  23356666676665554555543

It is also involved in sporulation [].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=93.60  E-value=5.3  Score=35.98  Aligned_cols=146  Identities=16%  Similarity=0.039  Sum_probs=93.8

Q ss_pred             hcCCHHHHHHHhcCCCCchhhHHHHHHHH-HHHhhccCcchhhHHhH-----------HHHHHHHHHHccCCHHHHHHHH
Q 045379           75 REVDSNTIWDAFDSLPPTHATWDDLINVS-VQLRLNKKWDPIVLMSC-----------VSILLIEAYGQKSLHKKAEFTY  142 (352)
Q Consensus        75 ~~g~~~~A~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~~~~~-----------~~~~li~~~~~~g~~~~a~~l~  142 (352)
                      -.|+.+.|.+-|+.|..|+.|--.=+.++ ....+.+..+-......           .+.+++...+..|+|+.|+++.
T Consensus       132 ~eG~~~~Ar~kfeAMl~dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLv  211 (531)
T COG3898         132 LEGDYEDARKKFEAMLDDPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLV  211 (531)
T ss_pred             hcCchHHHHHHHHHHhcChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHH
Confidence            46999999999999998888765555543 33333332222221111           8899999999999999999999


Q ss_pred             HHHHhCC-CCCCHH--HHHHHHHHHHH---cCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHcCCCHHHHHHHHHHH
Q 045379          143 LELLDSR-CIPTED--TYALLLKAYCM---SGLLEKAEAVFREMRKYGLPPSAVVYN-SYIDGLLKGGNPQKAVEIFQRM  215 (352)
Q Consensus       143 ~~m~~~~-~~p~~~--~~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~~~~~~~~-~li~~~~~~g~~~~a~~~~~~m  215 (352)
                      +.-+... +.++..  .-..|+.+-+.   ..+...|...-.+..+  +.|+...-. .-..++.+.|+..++-.+++.+
T Consensus       212 d~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~a  289 (531)
T COG3898         212 DAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETA  289 (531)
T ss_pred             HHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHH
Confidence            9887543 445544  33444443322   2345555555444433  345433322 3456788899999999999998


Q ss_pred             HHcCCCC
Q 045379          216 KRDCCQP  222 (352)
Q Consensus       216 ~~~~~~~  222 (352)
                      -+..-.|
T Consensus       290 WK~ePHP  296 (531)
T COG3898         290 WKAEPHP  296 (531)
T ss_pred             HhcCCCh
Confidence            8874333

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.59  E-value=2.7  Score=36.94  Aligned_cols=152  Identities=14%  Similarity=0.049  Sum_probs=108.5

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHcCCCHHH
Q 045379          131 QKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY---GLPPSAVVYNSYIDGLLKGGNPQK  207 (352)
Q Consensus       131 ~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~~~~~~~~~li~~~~~~g~~~~  207 (352)
                      -.|.+.+|-..|+++.+. .+.|..++.-.=++|...|+.+.-...+++....   ++|....+-....-++..+|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            457888888889988875 4457888888999999999999988888887654   343334444455556678899999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHH
Q 045379          208 AVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN---ICTYTALVNAFAREGLCEEAEEIFEQ  284 (352)
Q Consensus       208 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~---~~t~~~li~~~~~~g~~~~a~~l~~~  284 (352)
                      |++.-++-.+.+ +.|.-+-.+....+-..|+..++.+...+-.+.--.-+   ..-|-...-.+...+.++.|+++|+.
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            999998888764 34666777788888888999999887766543210111   11233344455667999999999975

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.46  E-value=1.3  Score=33.98  Aligned_cols=73  Identities=23%  Similarity=0.103  Sum_probs=47.8

Q ss_pred             HHccCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 045379          129 YGQKSLHKKAEFTYLELLDSRC--IPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK  201 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  201 (352)
                      ..+.|++++|.+.|+.+..+-.  +-....-..++.+|.+.+++++|...+++..+..-.....-|...+.+++.
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            4467888888888888876532  124456777888888888888888888887775432223445555555443

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

Probab=93.36  E-value=2.9  Score=38.84  Aligned_cols=83  Identities=13%  Similarity=0.081  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHH
Q 045379          190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDC-CQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNI--CTYTALV  266 (352)
Q Consensus       190 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~--~t~~~li  266 (352)
                      .+-..+..++.+.|+.++|.+.|++|.+.. ..........|++++...+.+.++..++.+..+... |..  ..|+..+
T Consensus       260 y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~l-pkSAti~YTaAL  338 (539)
T PF04184_consen  260 YAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISL-PKSATICYTAAL  338 (539)
T ss_pred             hhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccC-CchHHHHHHHHH
Confidence            333457777888999999999999997653 222445778899999999999999999999865433 333  3566655


Q ss_pred             HHHHhcC
Q 045379          267 NAFAREG  273 (352)
Q Consensus       267 ~~~~~~g  273 (352)
                      ..+-..+
T Consensus       339 LkaRav~  345 (539)
T PF04184_consen  339 LKARAVG  345 (539)
T ss_pred             HHHHhhc
Confidence            4443333

The molecular function of this protein is uncertain.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=93.26  E-value=2.3  Score=38.28  Aligned_cols=105  Identities=17%  Similarity=0.074  Sum_probs=78.4

Q ss_pred             HHHcCCCHHHHHHHHHHHHHc-----CC---------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 045379          198 GLLKGGNPQKAVEIFQRMKRD-----CC---------QPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYT  263 (352)
Q Consensus       198 ~~~~~g~~~~a~~~~~~m~~~-----~~---------~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~  263 (352)
                      .|.+.|++..|..-|++....     +.         ..-..++++|.-+|.+.+++.+|++.-......+ ++|....-
T Consensus       217 ~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALy  295 (397)
T KOG0543|consen  217 VLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALY  295 (397)
T ss_pred             HHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHH
Confidence            455666666666665553221     11         1124578899999999999999999999998775 56777888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          264 ALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR  305 (352)
Q Consensus       264 ~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~  305 (352)
                      .--.+|...|+++.|...|+++++.  .|+-...+.=+..|.
T Consensus       296 RrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~  335 (397)
T KOG0543|consen  296 RRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLK  335 (397)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHH
Confidence            8889999999999999999999875  777776666665554

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=93.14  E-value=6.4  Score=35.58  Aligned_cols=184  Identities=15%  Similarity=0.007  Sum_probs=114.7

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHH---cCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDSR---CIPTEDTYALLLKAYCM---SGLLEKAEAVFREMRKYGLPPSAVVYNSYI  196 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~~---~~p~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~~~~~~~~~li  196 (352)
                      ..++-+|....+++...++.+.+...-   +.-+...--...-++.+   .|+.++|+.++..+....-.++..+|..+-
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            344445999999999999999998641   11122222233445556   899999999999976666678888888877


Q ss_pred             HHHHc---------CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC-H---HHHHHHH---HH-HHhCCC---C
Q 045379          197 DGLLK---------GGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASK-S---FMALKLF---NE-MRSHKC---K  256 (352)
Q Consensus       197 ~~~~~---------~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~-~---~~a~~l~---~~-m~~~g~---~  256 (352)
                      ..|-.         ...+++|...|.+--+.  .||..+=-++.......|. .   .+..++-   .. +.+.|.   .
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            76643         22367777777765543  2444322222222223332 1   2223332   12 223332   2


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH
Q 045379          257 PNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRM  310 (352)
Q Consensus       257 p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m  310 (352)
                      .+---+.+++.++.-.|+.++|.+..++|.+.. .|..+ ..+.++-+.+++..
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~-~~~W~-l~St~~ni~Li~~~  354 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK-PPAWE-LESTLENIKLIRHF  354 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC-Ccchh-HHHHHHHHHHHHHH
Confidence            344567889999999999999999999999762 44433 55666666666666

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.13  E-value=5.2  Score=39.51  Aligned_cols=145  Identities=14%  Similarity=0.076  Sum_probs=92.2

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKG  202 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  202 (352)
                      ....+.+.+.|++++|..-|-+-... +.|+     .+|.-|....+..+-...++.+.+.|+ .+...-..|+.+|.+.
T Consensus       372 ~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKl  444 (933)
T KOG2114|consen  372 RKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKL  444 (933)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHh
Confidence            33446677889999998888766542 2232     244555555666667777788888886 4557778889999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 045379          203 GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIF  282 (352)
Q Consensus       203 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~  282 (352)
                      ++.++-.++.+.-. .|.-  ..-....+..+.+.+-.++|..+-.....     +......++   -..|++++|++.+
T Consensus       445 kd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi  513 (933)
T KOG2114|consen  445 KDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDILL---EDLHNYEEALRYI  513 (933)
T ss_pred             cchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHH
Confidence            98888777766554 2221  11234556666777777777766655432     233333333   3457788888777


Q ss_pred             HHH
Q 045379          283 EQL  285 (352)
Q Consensus       283 ~~m  285 (352)
                      ..+
T Consensus       514 ~sl  516 (933)
T KOG2114|consen  514 SSL  516 (933)
T ss_pred             hcC
Confidence            766

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

Probab=93.12  E-value=1.6  Score=37.63  Aligned_cols=78  Identities=10%  Similarity=0.173  Sum_probs=65.3

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHHHH
Q 045379          190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRS-----HKCKPNICTYTA  264 (352)
Q Consensus       190 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~-----~g~~p~~~t~~~  264 (352)
                      .++..++..+...|+.+.+...++++.... +-+...|..+|.+|.+.|+...|+..++.+.+     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            567778888889999999999999998864 55888999999999999999999999988754     688888887776


Q ss_pred             HHHH
Q 045379          265 LVNA  268 (352)
Q Consensus       265 li~~  268 (352)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            6665

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

Probab=93.05  E-value=9.3  Score=37.16  Aligned_cols=224  Identities=13%  Similarity=0.042  Sum_probs=129.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHh----HHHHHHHHHHHccCCHHHHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMS----CVSILLIEAYGQKSLHKKAEF  140 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~  140 (352)
                      ..+.+...++..-.|++|.+.+......    ...+.++......+..+......    ...-.+.+++.+.|.-++|.+
T Consensus       798 A~r~ig~~fa~~~~We~A~~yY~~~~~~----e~~~ecly~le~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~  873 (1189)
T KOG2041|consen  798 AFRNIGETFAEMMEWEEAAKYYSYCGDT----ENQIECLYRLELFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVE  873 (1189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccch----HhHHHHHHHHHhhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHH
Confidence            6688999999999999999999876421    12334444444444433333222    255667788888999998888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-----------CCHHHHHHHHHHHHcCCCHHHHH
Q 045379          141 TYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLP-----------PSAVVYNSYIDGLLKGGNPQKAV  209 (352)
Q Consensus       141 l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-----------~~~~~~~~li~~~~~~g~~~~a~  209 (352)
                      .|-+.-.    |.     ..+.+|...++|.+|.++-+..+-..+.           .+.. .-.-|..+.+.|+.=+|-
T Consensus       874 a~Lr~s~----pk-----aAv~tCv~LnQW~~avelaq~~~l~qv~tliak~aaqll~~~~-~~eaIe~~Rka~~~~daa  943 (1189)
T KOG2041|consen  874 AYLRRSL----PK-----AAVHTCVELNQWGEAVELAQRFQLPQVQTLIAKQAAQLLADAN-HMEAIEKDRKAGRHLDAA  943 (1189)
T ss_pred             HHHhccC----cH-----HHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHhhcc-hHHHHHHhhhcccchhHH
Confidence            7754432    22     3456777788888887776553221110           0001 122455678888877777


Q ss_pred             HHHHHHHH----cCCCCCHH----HHHH-HHHHH----------HhcCCHHHHHHHHHHHHhC-------CCCCCHHHHH
Q 045379          210 EIFQRMKR----DCCQPSTE----TYTL-MINLY----------GKASKSFMALKLFNEMRSH-------KCKPNICTYT  263 (352)
Q Consensus       210 ~~~~~m~~----~~~~~~~~----~~~~-li~~~----------~~~g~~~~a~~l~~~m~~~-------g~~p~~~t~~  263 (352)
                      +++.+|-+    ++++|-..    +..+ |+.-+          -.+|..++|..+++.-...       +.-.....|.
T Consensus       944 rll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~~~ik~~~~~~~~g~~~dat~lles~~l~~~~ri~~n~WrgAEAyH 1023 (1189)
T KOG2041|consen  944 RLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHRQTIKELRKIDKHGFLEDATDLLESGLLAEQSRILENTWRGAEAYH 1023 (1189)
T ss_pred             HHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcchhhhhhhhhhhhhhHHHHHHhhhhhHHHHH
Confidence            77777754    34433221    1111 12222          1346666777655543211       0111233455


Q ss_pred             HHHHH--HHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHH
Q 045379          264 ALVNA--FAREGLCEEAEEIFEQLQGA-GIEPDVYAYNALME  302 (352)
Q Consensus       264 ~li~~--~~~~g~~~~a~~l~~~m~~~-~~~p~~~~~~~li~  302 (352)
                      .+|.+  -...|.++.|++.--.+.+. .+-|..+.|+.+.-
T Consensus      1024 FmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllAL 1065 (1189)
T KOG2041|consen 1024 FMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLAL 1065 (1189)
T ss_pred             HHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHH
Confidence            55544  44578899998887777654 56777788876653

>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=92.92  E-value=2.1  Score=34.42  Aligned_cols=97  Identities=15%  Similarity=0.105  Sum_probs=64.0

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHH
Q 045379          190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPS--TETYTLMINLYGKASKSFMALKLFNEMRSH---KCKPNICTYTA  264 (352)
Q Consensus       190 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~l~~~m~~~---g~~p~~~t~~~  264 (352)
                      ..+..+...|.+.|+.+.|.+.|.++.+....+.  ...+-.+|......+++..+.....+....   |-.++...--.
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            5677788888888888888888888887654433  234566778888888888888777766442   22222221111


Q ss_pred             HHH--HHHhcCCHHHHHHHHHHHH
Q 045379          265 LVN--AFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       265 li~--~~~~~g~~~~a~~l~~~m~  286 (352)
                      +..  ++...+++.+|.+.|-+..
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence            111  2345789999999888764

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=92.78  E-value=4.5  Score=39.92  Aligned_cols=118  Identities=18%  Similarity=0.182  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH----HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAY----CMSGLLEKAEAVFREMRKYGLPPSAVVYNSYI  196 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~----~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li  196 (352)
                      ....-|+...+...++-|..+-+.-   +  .+..+...++..|    .+.|++++|..-|-+-... +.|     ..+|
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~---~--~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi  404 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQ---H--LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVI  404 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhc---C--CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHH
Confidence            3344555555565666555443321   1  2344444444433    3456666665555443332 111     1234


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          197 DGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       197 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      .-|....++..-..+++.+.+.|+. +..--+.|+++|.+.++.++-.+..+..
T Consensus       405 ~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~  457 (933)
T KOG2114|consen  405 KKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKC  457 (933)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcC
Confidence            4444455555555566666665543 3344455666666666665555544443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=92.69  E-value=3.4  Score=31.15  Aligned_cols=92  Identities=13%  Similarity=-0.055  Sum_probs=66.0

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH---HHHHHcCC
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSY---IDGLLKGG  203 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l---i~~~~~~g  203 (352)
                      -+.+..|+.+.|++.|.+...--+ -....||.-..++--+|+.++|++=+++..+..-.-+...+.+.   -..|...|
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P-~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAP-ERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhcc-cchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            356778999999999988876432 36778999999999999999998888887764322343333332   33567788


Q ss_pred             CHHHHHHHHHHHHHcC
Q 045379          204 NPQKAVEIFQRMKRDC  219 (352)
Q Consensus       204 ~~~~a~~~~~~m~~~~  219 (352)
                      +-+.|..-|+..-+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            8888888887776655

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

Probab=92.62  E-value=0.29  Score=27.52  Aligned_cols=24  Identities=25%  Similarity=0.005  Sum_probs=14.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHH
Q 045379          122 SILLIEAYGQKSLHKKAEFTYLEL  145 (352)
Q Consensus       122 ~~~li~~~~~~g~~~~a~~l~~~m  145 (352)
                      |+.|...|.+.|++++|.++|++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            455566666666666666666653

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=92.22  E-value=0.66  Score=27.39  Aligned_cols=29  Identities=21%  Similarity=0.115  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSR  149 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~  149 (352)
                      +|..+...|.+.|++++|.++|++..+..
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~   31 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALD   31 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            34555666666666666666666666543

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

Probab=92.17  E-value=9.5  Score=35.14  Aligned_cols=32  Identities=9%  Similarity=0.056  Sum_probs=28.8

Q ss_pred             hcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          311 HMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       311 ~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      -..+.|+..+|.-+.-.+....+++||+++|.
T Consensus       488 L~~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~  519 (549)
T PF07079_consen  488 LTKIAPSPQAYRLLGLCLMENKRYQEAWEYLQ  519 (549)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            45678999999999999999999999999997

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

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=92.16  E-value=8.8  Score=34.74  Aligned_cols=160  Identities=18%  Similarity=0.097  Sum_probs=99.0

Q ss_pred             chhhHHHHHHHHHHHhhccCcchhhHHhH---------------HHHHHHHHHHc---cCCHHHHHHHHHHHHhCCCCCC
Q 045379           92 THATWDDLINVSVQLRLNKKWDPIVLMSC---------------VSILLIEAYGQ---KSLHKKAEFTYLELLDSRCIPT  153 (352)
Q Consensus        92 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---------------~~~~li~~~~~---~g~~~~a~~l~~~m~~~~~~p~  153 (352)
                      ...+-.++++.+...++...++.++...+               +---..-++.+   .|+.++|++++..+......++
T Consensus       137 ~~ls~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~  216 (374)
T PF13281_consen  137 ELLSPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPD  216 (374)
T ss_pred             hhcChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCC
Confidence            34455566666666666666666655544               11123344556   8999999999999776667788


Q ss_pred             HHHHHHHHHHHHHc---------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH----HHHHHHH---HH-HH
Q 045379          154 EDTYALLLKAYCMS---------GLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNP----QKAVEIF---QR-MK  216 (352)
Q Consensus       154 ~~~~~~li~~~~~~---------g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~----~~a~~~~---~~-m~  216 (352)
                      +.+|..+...|-+.         ...++|...|.+--+.  .|+..+--.++..+...|..    .+..++-   .. +.
T Consensus       217 ~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg  294 (374)
T PF13281_consen  217 PDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLG  294 (374)
T ss_pred             hHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHH
Confidence            99999888877431         2366777777665443  24433322233333333331    2233333   11 22


Q ss_pred             HcCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          217 RDCC---QPSTETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       217 ~~~~---~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      ++|.   ..+-..+..++.++.-.|+.++|.+..++|...
T Consensus       295 ~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  295 RKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             hhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            3332   235566788999999999999999999999876

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=91.87  E-value=4.3  Score=30.58  Aligned_cols=91  Identities=18%  Similarity=0.138  Sum_probs=57.8

Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHH---HHHHHHHhcCC
Q 045379          163 AYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYT---LMINLYGKASK  239 (352)
Q Consensus       163 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~---~li~~~~~~g~  239 (352)
                      +.+..|+.+.|++.|.+...- .+-....||.-..++.-+|+.++|..-+++..+..-.-+.....   .--..|...|+
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 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            456677888888887776654 34456777877778877888888777777766532122222222   22344566677


Q ss_pred             HHHHHHHHHHHHhCC
Q 045379          240 SFMALKLFNEMRSHK  254 (352)
Q Consensus       240 ~~~a~~l~~~m~~~g  254 (352)
                      -+.|..=|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            777777777666555

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=91.76  E-value=8.1  Score=33.47  Aligned_cols=121  Identities=13%  Similarity=0.091  Sum_probs=62.1

Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH
Q 045379          128 AYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQK  207 (352)
Q Consensus       128 ~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  207 (352)
                      .....|++.+|..+|+........ +...-..+..++...|+.+.|..++..+....-.........-|..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            345566677777766666654322 3445555666666677777777776665433221122222223333444444444


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          208 AVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMR  251 (352)
Q Consensus       208 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~  251 (352)
                      ...+-.+.-..  +-|...--.+...+...|+.++|.+.+-.+.
T Consensus       222 ~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l  263 (304)
T COG3118         222 IQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALL  263 (304)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44444444332  2244445555566666666666665555544

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=91.71  E-value=8.7  Score=37.00  Aligned_cols=54  Identities=17%  Similarity=0.181  Sum_probs=33.4

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          195 YIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       195 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      .+..+..+|-.+.+.++-.++...    +..+...+..-+-+...+.-|-++|..|-+
T Consensus       722 Ai~i~~d~gW~d~lidI~rkld~~----ere~l~~~a~ylk~l~~~gLAaeIF~k~gD  775 (1081)
T KOG1538|consen  722 AIEICGDHGWVDMLIDIARKLDKA----EREPLLLCATYLKKLDSPGLAAEIFLKMGD  775 (1081)
T ss_pred             hhhhhhcccHHHHHHHHHhhcchh----hhhHHHHHHHHHhhccccchHHHHHHHhcc
Confidence            344456666667777666665543    444555555555566667778888887743

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.70  E-value=2.6  Score=36.70  Aligned_cols=103  Identities=17%  Similarity=0.115  Sum_probs=55.7

Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCH
Q 045379          148 SRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY---GLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPST  224 (352)
Q Consensus       148 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~  224 (352)
                      .|.+.+..+...++..-....+++.++..+-.++..   ...|+. +-.+.++.+. .-++++++.++..-.+.|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irlll-ky~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHHH-ccChHHHHHHHhCcchhccccch
Confidence            344444555555555555556666666665555543   112221 1112222222 23555666666666666666777


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          225 ETYTLMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       225 ~~~~~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      .+++.+|..+.+.+++.+|..+...|..
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            7777777777777776666666655543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.57  E-value=5.1  Score=34.19  Aligned_cols=58  Identities=16%  Similarity=0.056  Sum_probs=25.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          230 MINLYGKASKSFMALKLFNEMRSH-KCKPN-ICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       230 li~~~~~~g~~~~a~~l~~~m~~~-g~~p~-~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      |..++...|++++|..+|..+.+. +-.|. +..+--|.....+.|+.++|..+|.++.+
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            444445555555555555444332 11111 13344444444445555555555555443

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

Probab=91.52  E-value=0.55  Score=26.36  Aligned_cols=26  Identities=27%  Similarity=0.345  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          261 TYTALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       261 t~~~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                      +|+.|...|.+.|++++|.++|++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46677778888888888888887743

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=91.38  E-value=4.2  Score=30.73  Aligned_cols=62  Identities=16%  Similarity=0.214  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcC
Q 045379          157 YALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDC  219 (352)
Q Consensus       157 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  219 (352)
                      ....++....+|+-|+-.+++.++.+. -.+++...-.+..+|.+.|+..++.+++.+.-+.|
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            333444444444444444444444331 12333444444444444444444444444444443

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

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

Probab=91.24  E-value=13  Score=34.77  Aligned_cols=74  Identities=12%  Similarity=0.185  Sum_probs=54.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHH
Q 045379          228 TLMINLYGKASKSFMALKLFNEMRSHK-CKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGI-EPDVYAYNALM  301 (352)
Q Consensus       228 ~~li~~~~~~g~~~~a~~l~~~m~~~g-~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~-~p~~~~~~~li  301 (352)
                      ..+..++.+.|+.++|++.|++|.+.. ..-+......|+.++...+.+.++..++.+..+... +.-...|+..+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHH
Confidence            456777789999999999999998653 112344788999999999999999999999754332 22335566544

The molecular function of this protein is uncertain.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=91.21  E-value=1  Score=26.51  Aligned_cols=27  Identities=15%  Similarity=0.239  Sum_probs=12.3

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 045379          192 YNSYIDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       192 ~~~li~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      +..+...|.+.|++++|+++|++..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            334444444444444444444444443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.12  E-value=8.6  Score=32.57  Aligned_cols=159  Identities=19%  Similarity=0.179  Sum_probs=107.8

Q ss_pred             HHHccCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHcC--
Q 045379          128 AYGQKSLHKKAEFTYLELLDSRC--IPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY-GLPPSAVVYNSYIDGLLKG--  202 (352)
Q Consensus       128 ~~~~~g~~~~a~~l~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~--  202 (352)
                      .-.+.|++++|.+.|+.+..+.+  +-...+...++.++-+.+++++|....++..+. +-.|| .-|..-|.+.+.-  
T Consensus        43 ~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n-~dY~~YlkgLs~~~~  121 (254)
T COG4105          43 TELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN-ADYAYYLKGLSYFFQ  121 (254)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC-hhHHHHHHHHHHhcc
Confidence            34578999999999999986542  235668888889999999999999999998765 33333 4455555555432  


Q ss_pred             -----CC---HHHHHHHHHHHHHc----CCCCCHHHH------------HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 045379          203 -----GN---PQKAVEIFQRMKRD----CCQPSTETY------------TLMINLYGKASKSFMALKLFNEMRSHKCKPN  258 (352)
Q Consensus       203 -----g~---~~~a~~~~~~m~~~----~~~~~~~~~------------~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~  258 (352)
                           .+   ...|..-|+++.++    .-.||...-            -.+..-|.+.|.+..|..-+++|.+. .+-+
T Consensus       122 i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~-y~~t  200 (254)
T COG4105         122 IDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLEN-YPDT  200 (254)
T ss_pred             CCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhc-cccc
Confidence                 22   23455555555554    112232221            23557788899999999999999875 2222


Q ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          259 ---ICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       259 ---~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                         ...+-.+..+|-+.|-.++|...-.-+..+
T Consensus       201 ~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         201 SAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             cchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence               235677788899999999888877776654

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=90.23  E-value=6.9  Score=30.00  Aligned_cols=58  Identities=14%  Similarity=0.071  Sum_probs=37.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 045379          161 LKAYCMSGLLEKAEAVFREMRKYG--LPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~~g--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      .....+.|++++|.+.|+.+..+-  -+-....--.++.+|.+.+++++|...+++.++.
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            334455677777777777776651  1223344556677777777777777777777765

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.65  E-value=4.7  Score=38.34  Aligned_cols=98  Identities=21%  Similarity=0.157  Sum_probs=44.7

Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 045379          166 MSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALK  245 (352)
Q Consensus       166 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  245 (352)
                      +.|+++.|.++..+.      .+..-|..|-++....+++..|.+.|.....         |..|+-.+...|+.+....
T Consensus       649 ~lgrl~iA~~la~e~------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~  713 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEA------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAV  713 (794)
T ss_pred             hcCcHHHHHHHHHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHH
Confidence            345555555544432      1224455555555555555555555544331         3334444444444444444


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 045379          246 LFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQ  284 (352)
Q Consensus       246 l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~  284 (352)
                      +-....+.|.      .|....+|...|+++++++++.+
T Consensus       714 la~~~~~~g~------~N~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  714 LASLAKKQGK------NNLAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHHHhhcc------cchHHHHHHHcCCHHHHHHHHHh
Confidence            4444444432      22223344445555555555443

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

Probab=89.61  E-value=1.1  Score=25.67  Aligned_cols=29  Identities=31%  Similarity=0.424  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          259 ICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       259 ~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      ..+++.|...|...|++++|..++.+..+
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            35677888888888888888888887753

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=89.53  E-value=1.4  Score=39.79  Aligned_cols=132  Identities=15%  Similarity=0.057  Sum_probs=91.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH----HCCCC-CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHH----cCC-CCCHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMR----KYGLP-PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKR----DCC-QPSTE  225 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~----~~g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~~~-~~~~~  225 (352)
                      .|..|-..|.-.|+++.|....++=.    +.|-+ .....+..+-+++.-.|+++.|.+.|+....    .|- .....
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            45556666666788999988766532    22322 2346678888999999999999999876432    221 12345


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          226 TYTLMINLYGKASKSFMALKLFNEMRSH-----KCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       226 ~~~~li~~~~~~g~~~~a~~l~~~m~~~-----g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      ++-.|-++|.-..++++|+..+.+-...     ...-....+-+|-.+|...|..++|+.....-.+
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            6667888888888899998877653221     1123456788899999999999999888766543

>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=89.28  E-value=9.5  Score=30.22  Aligned_cols=103  Identities=17%  Similarity=0.213  Sum_probs=70.7

Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          174 EAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       174 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      .+..+.+.+.+++|+...+..+++.+.+.|++...    .++...++-+|....-..+-.+..  ....+.++--+|...
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            35556677889999999999999999999986554    455555666666655554433333  234444444444432


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          254 KCKPNICTYTALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       254 g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                          =...+..++..+...|++-+|+++.++..
T Consensus        88 ----L~~~~~~iievLL~~g~vl~ALr~ar~~~  116 (167)
T PF07035_consen   88 ----LGTAYEEIIEVLLSKGQVLEALRYARQYH  116 (167)
T ss_pred             ----hhhhHHHHHHHHHhCCCHHHHHHHHHHcC
Confidence                00147778889999999999999998864

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.26  E-value=7.1  Score=34.15  Aligned_cols=104  Identities=13%  Similarity=0.147  Sum_probs=77.5

Q ss_pred             CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 045379          183 YGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDC---CQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNI  259 (352)
Q Consensus       183 ~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~  259 (352)
                      .|.+....+...++..-....+++.++..+-+++...   ..|+.. -...+.-+ -.=++++++.++..=...|+=||-
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~-~~~~irll-lky~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWT-IHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcccc-HHHHHHHH-HccChHHHHHHHhCcchhccccch
Confidence            4666677777888877777888999999888876531   112111 11222222 334678999999988899999999


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          260 CTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       260 ~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      .+++.+|+.+.+.+++.+|.++...|...
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            99999999999999999999998877654

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

Probab=88.85  E-value=1.2  Score=25.50  Aligned_cols=25  Identities=16%  Similarity=0.319  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHH
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRM  215 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m  215 (352)
                      +++.+...|...|++++|..++++.
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHH
Confidence            3444444444444444444444443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=88.52  E-value=11  Score=30.16  Aligned_cols=167  Identities=16%  Similarity=0.055  Sum_probs=111.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH-H
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDS-RCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYID-G  198 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~-~  198 (352)
                      .+......+...+.+..+...+...... ........+......+...+....+.+.+.........+. ........ .
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  139 (291)
T COG0457          61 LLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLALGA  139 (291)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHHHH
Confidence            4566667777788888888887777652 2334555677777777777888888888888776543331 22222222 6


Q ss_pred             HHcCCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 045379          199 LLKGGNPQKAVEIFQRMKRDCC--QPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCE  276 (352)
Q Consensus       199 ~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~  276 (352)
                      +...|+++.|...+.+......  ......+......+...++.+.+...+..............+..+-..+...++++
T Consensus       140 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  219 (291)
T COG0457         140 LYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYE  219 (291)
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccHH
Confidence            7788888888888888755211  12333444444456677888888888888876531113567777778888888888


Q ss_pred             HHHHHHHHHHHC
Q 045379          277 EAEEIFEQLQGA  288 (352)
Q Consensus       277 ~a~~l~~~m~~~  288 (352)
                      .|...+......
T Consensus       220 ~a~~~~~~~~~~  231 (291)
T COG0457         220 EALEYYEKALEL  231 (291)
T ss_pred             HHHHHHHHHHhh
Confidence            888888887754

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=88.42  E-value=27  Score=34.31  Aligned_cols=143  Identities=13%  Similarity=0.097  Sum_probs=63.8

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHh---
Q 045379          196 IDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHK-CKPNICTYTALVNAFAR---  271 (352)
Q Consensus       196 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g-~~p~~~t~~~li~~~~~---  271 (352)
                      ...+.-.|+++.|.+.+-+..  +...+.+.+-+.+.-|   |-+......-..+.... -.|...-+..||..|.+   
T Consensus       265 f~~LlLtgqFE~AI~~L~~~~--~~~~dAVH~AIaL~~~---gLL~~~~~~~~~lls~~~~~~~~ln~arLI~~Y~~~F~  339 (613)
T PF04097_consen  265 FQVLLLTGQFEAAIEFLYRNE--FNRVDAVHFAIALAYY---GLLRVSDSSSAPLLSVDPGDPPPLNFARLIGQYTRSFE  339 (613)
T ss_dssp             HHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHT---T------------------------HHHHHHHHHHTTT
T ss_pred             HHHHHHHhhHHHHHHHHHhhc--cCcccHHHHHHHHHHc---CCCCCCCccccceeeecCCCCCCcCHHHHHHHHHHHHh
Confidence            344555789999999887711  1122334333333333   32222211112222111 01222567888888887   


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------------------HHHH-H-hcCCCC-CHHH---HHH
Q 045379          272 EGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR----------------------LISR-M-HMGCEP-DRAS---YNI  323 (352)
Q Consensus       272 ~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----------------------~~~~-m-~~~~~p-~~~~---~~~  323 (352)
                      ..+..+|++++--+....-......+...+.-+.                      ++++ . --++.. ....   ...
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            4578888888887765433222333333333222                      2222 1 111222 2222   333


Q ss_pred             HHHHHHHcCCcchhHHHHHH
Q 045379          324 MVDAYGRAGLHEGKCSYSLV  343 (352)
Q Consensus       324 li~a~~~~g~~~~A~~~~~~  343 (352)
                      ...-+...|++++|..+|.+
T Consensus       420 ~A~~~e~~g~~~dAi~Ly~L  439 (613)
T PF04097_consen  420 AAREAEERGRFEDAILLYHL  439 (613)
T ss_dssp             HHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHH
Confidence            45568889999999999863

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.37  E-value=8.9  Score=36.60  Aligned_cols=81  Identities=20%  Similarity=0.101  Sum_probs=36.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMIN  232 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  232 (352)
                      +..-|..|-++..+.|++..|.+.|....         -|..|+-.+...|+-+....+-..-.+.|.      .|....
T Consensus       665 s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~---------d~~~LlLl~t~~g~~~~l~~la~~~~~~g~------~N~AF~  729 (794)
T KOG0276|consen  665 SEVKWRQLGDAALSAGELPLASECFLRAR---------DLGSLLLLYTSSGNAEGLAVLASLAKKQGK------NNLAFL  729 (794)
T ss_pred             chHHHHHHHHHHhhcccchhHHHHHHhhc---------chhhhhhhhhhcCChhHHHHHHHHHHhhcc------cchHHH
Confidence            33445555555555555555555554432         233344444444544433333333333331      222333


Q ss_pred             HHHhcCCHHHHHHHHH
Q 045379          233 LYGKASKSFMALKLFN  248 (352)
Q Consensus       233 ~~~~~g~~~~a~~l~~  248 (352)
                      +|...|+++++.+++.
T Consensus       730 ~~~l~g~~~~C~~lLi  745 (794)
T KOG0276|consen  730 AYFLSGDYEECLELLI  745 (794)
T ss_pred             HHHHcCCHHHHHHHHH
Confidence            4444555555555443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=88.32  E-value=4.2  Score=28.74  Aligned_cols=37  Identities=5%  Similarity=0.125  Sum_probs=15.0

Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          214 RMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       214 ~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      .+....+.|++....+.+.+|.+.+++..|.++|+-.
T Consensus        32 ~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~v   68 (103)
T cd00923          32 NLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAI   68 (103)
T ss_pred             HHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            3333333444444444444444444444444444433

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.

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

Probab=88.19  E-value=21  Score=32.95  Aligned_cols=25  Identities=8%  Similarity=-0.013  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          318 RASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       318 ~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ..+|..++....+.++.++|..++.
T Consensus       298 i~~F~~~Ls~~Vk~~~T~~a~q~l~  322 (549)
T PF07079_consen  298 IDRFGNLLSFKVKQVQTEEAKQYLA  322 (549)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            4567888888888888888888775

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

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=88.11  E-value=5  Score=28.37  Aligned_cols=47  Identities=11%  Similarity=0.070  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 045379          135 HKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMR  181 (352)
Q Consensus       135 ~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (352)
                      .=++.+-++.+....+.|++......+++|-+.+++..|..+++-.+
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33555566666666666777777777777777777777777776655

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.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=87.96  E-value=11  Score=29.13  Aligned_cols=81  Identities=10%  Similarity=0.076  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCC-----CCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHCCCCCCHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRC-----IPTEDTYALLLKAYCMSGL-LEKAEAVFREMRKYGLPPSAVVYNS  194 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~-----~p~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~~~~~~~~~  194 (352)
                      ..|.++.-...-+.+...+.+++.+..-..     ..+..+|++++.+.++..- ---+..+|+.|++.+.+++..-|..
T Consensus        41 fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~  120 (145)
T PF13762_consen   41 FINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSC  120 (145)
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            445555555555555555555555521100     1233344555555443333 2234444555554444555555555


Q ss_pred             HHHHHHc
Q 045379          195 YIDGLLK  201 (352)
Q Consensus       195 li~~~~~  201 (352)
                      +|.++.+
T Consensus       121 li~~~l~  127 (145)
T PF13762_consen  121 LIKAALR  127 (145)
T ss_pred             HHHHHHc
Confidence            5554443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=87.86  E-value=9.3  Score=31.64  Aligned_cols=84  Identities=13%  Similarity=-0.007  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHH
Q 045379          226 TYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA--GIEPDVYAYNALMEA  303 (352)
Q Consensus       226 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~--~~~p~~~~~~~li~a  303 (352)
                      |.+..++.+.+.+.+.+|+...++-.+.. +-|..+-..++..+|-.|+|++|..-++-.-..  ...+-..+|..+|++
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            44566777778888888888887766652 334455667788888888888888777766543  455667888888877


Q ss_pred             HHHHHHH
Q 045379          304 YRLISRM  310 (352)
Q Consensus       304 ~~~~~~m  310 (352)
                      -..-+..
T Consensus        82 ea~R~ev   88 (273)
T COG4455          82 EAARNEV   88 (273)
T ss_pred             HHHHHHH
Confidence            6643333

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.37  E-value=13  Score=29.60  Aligned_cols=132  Identities=17%  Similarity=0.146  Sum_probs=62.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHH-
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYN-SYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTE-TYTLMIN-  232 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~-~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~li~-  232 (352)
                      .|..-+. .++.+..++|+.-|.++.+.|...-...-. -........|+-..|...|++.-...-.|-.. -.--|=. 
T Consensus        61 ~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa  139 (221)
T COG4649          61 AFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAA  139 (221)
T ss_pred             HHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHH
Confidence            3443333 234455666666666666655432211111 11222344566666666666665543333221 1111111 


Q ss_pred             -HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          233 -LYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       233 -~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                       .+..+|.++......+-+...+-+.-...-..|--+-.+.|++.+|.+.|.++.+.
T Consensus       140 ~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         140 YLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence             22345666666555555544432222233344444555666666666666666554

>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=87.06  E-value=8.9  Score=31.30  Aligned_cols=73  Identities=14%  Similarity=0.089  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          206 QKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH---KCKPNICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~---g~~p~~~t~~~li~~~~~~g~~~~a~  279 (352)
                      +.|.+.|-++...+.--++...-.|...| ...+.+++..++.+..+.   +-.+|+..+..|.+.|-+.|+++.|.
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY-~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYY-TKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHH-HccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            56666666666665444444444443333 356677777777666542   23566777777777777777777664

>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=86.93  E-value=0.17  Score=38.95  Aligned_cols=51  Identities=16%  Similarity=0.296  Sum_probs=22.5

Q ss_pred             HHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 045379          198 GLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFN  248 (352)
Q Consensus       198 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~  248 (352)
                      .+.+.+.++....+++.+...+...+....+.++..|++.++.++.+++++
T Consensus        16 ~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   16 AFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            333444444444444444443333344444555555555544444444443

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.

>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=86.74  E-value=0.2  Score=38.57  Aligned_cols=53  Identities=11%  Similarity=0.073  Sum_probs=29.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHH
Q 045379          161 LKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQ  213 (352)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~  213 (352)
                      ++.+.+.+.++....+++.+.+.+...+....+.++..|++.++.++...+++
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            44444455556666666666655544555666666666666655555555555

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.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=86.58  E-value=25  Score=32.07  Aligned_cols=85  Identities=13%  Similarity=0.022  Sum_probs=50.2

Q ss_pred             HHcCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHH---HHHHHHHHHHhcC
Q 045379          165 CMSGLLEKAEAVFREMRKY---GLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTE---TYTLMINLYGKAS  238 (352)
Q Consensus       165 ~~~g~~~~a~~~~~~m~~~---g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---~~~~li~~~~~~g  238 (352)
                      .+.|.+..|.+.|.+....   ...|+...|-.......+.|+.++|+.--+...+.    |..   .+..-..++.-.+
T Consensus       260 fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i----D~syikall~ra~c~l~le  335 (486)
T KOG0550|consen  260 FKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI----DSSYIKALLRRANCHLALE  335 (486)
T ss_pred             hhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc----CHHHHHHHHHHHHHHHHHH
Confidence            4566777777777766553   34455566666666666777777777666666543    222   2222334455556


Q ss_pred             CHHHHHHHHHHHHhC
Q 045379          239 KSFMALKLFNEMRSH  253 (352)
Q Consensus       239 ~~~~a~~l~~~m~~~  253 (352)
                      +|++|.+-|+...+.
T Consensus       336 ~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  336 KWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHhh
Confidence            677777766666543

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=86.20  E-value=5.2  Score=28.61  Aligned_cols=46  Identities=11%  Similarity=0.101  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 045379          137 KAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRK  182 (352)
Q Consensus       137 ~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  182 (352)
                      +..+-++.+....+.|++......+.+|-+.+++..|..+++-.+.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4445555555556666666666666666666666666666666554

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 ....

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=86.13  E-value=22  Score=30.86  Aligned_cols=132  Identities=5%  Similarity=0.066  Sum_probs=70.4

Q ss_pred             CHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHcCC--CHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          169 LLEKAEAVFREMRK-YGLPPSAVVYNSYIDGLLKGG--NPQKAVEIFQRMKR-DCCQPSTETYTLMINLYGKASKSFMAL  244 (352)
Q Consensus       169 ~~~~a~~~~~~m~~-~g~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~~~~~g~~~~a~  244 (352)
                      .+-+|+.+|+...- ..+..|..+...+++......  ....-.++.+-+.. .|-.++..+.-.+|..++..++|.+-.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            34555555553222 234455566666666555421  22223333333322 234556666666777777777777777


Q ss_pred             HHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH-----HHCCCCCCHHHHHHH
Q 045379          245 KLFNEMRSH-KCKPNICTYTALVNAFAREGLCEEAEEIFEQL-----QGAGIEPDVYAYNAL  300 (352)
Q Consensus       245 ~l~~~m~~~-g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m-----~~~~~~p~~~~~~~l  300 (352)
                      ++++..... +..-|...|..+|......|+..-...+..+=     .+.++..+...-.++
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L  284 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQL  284 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHH
Confidence            766665443 44456666777777777777766665555441     233555555444443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=86.02  E-value=47  Score=34.63  Aligned_cols=21  Identities=14%  Similarity=-0.054  Sum_probs=15.5

Q ss_pred             HHHHHHHHHcCCcchhHHHHH
Q 045379          322 NIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       322 ~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .-.+..|++.-.|++|.++-.
T Consensus      1030 ~~av~ll~ka~~~~eAlrva~ 1050 (1265)
T KOG1920|consen 1030 EEAVALLCKAKEWEEALRVAS 1050 (1265)
T ss_pred             HHHHHHHhhHhHHHHHHHHHH
Confidence            355667778888899988764

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=85.60  E-value=29  Score=31.75  Aligned_cols=152  Identities=16%  Similarity=0.102  Sum_probs=97.6

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHHcCCHHHHHHHHHHHHHCCCCCCH-------------HHHH
Q 045379          129 YGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKA--YCMSGLLEKAEAVFREMRKYGLPPSA-------------VVYN  193 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~--~~~~g~~~~a~~~~~~m~~~g~~~~~-------------~~~~  193 (352)
                      +.-.|++++|...-...++...   ...+...++.  +-..++.+.+...|++....+  |+.             ..+.
T Consensus       179 l~~~~~~~~a~~ea~~ilkld~---~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k  253 (486)
T KOG0550|consen  179 LAFLGDYDEAQSEAIDILKLDA---TNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKK  253 (486)
T ss_pred             hhhcccchhHHHHHHHHHhccc---chhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHH
Confidence            4445677777666655554321   1123333332  233556677777777665532  221             1222


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHH---cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH---HHHHHH
Q 045379          194 SYIDGLLKGGNPQKAVEIFQRMKR---DCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICT---YTALVN  267 (352)
Q Consensus       194 ~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t---~~~li~  267 (352)
                      .--+-..+.|++.+|.+.|.+-+.   .++.|+...|.....+..+.|+..+|+.--++....    |..-   |..-..
T Consensus       254 ~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i----D~syikall~ra~  329 (486)
T KOG0550|consen  254 ERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI----DSSYIKALLRRAN  329 (486)
T ss_pred             hhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc----CHHHHHHHHHHHH
Confidence            223345678999999999998776   345677788888888999999999999988877653    4332   333334


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCC
Q 045379          268 AFAREGLCEEAEEIFEQLQGAG  289 (352)
Q Consensus       268 ~~~~~g~~~~a~~l~~~m~~~~  289 (352)
                      ++...++|++|.+-+++..+..
T Consensus       330 c~l~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  330 CHLALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhc
Confidence            5666889999999999887653

>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=85.30  E-value=16  Score=28.63  Aligned_cols=55  Identities=15%  Similarity=0.276  Sum_probs=27.5

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 045379          162 KAYCMSGLLEKAEAVFREMRKYG-LPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      ......++.+++..++.-+.--. -.|...++...+  +...|+|.+|.++|+++.+.
T Consensus        18 ~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l--~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   18 SVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWL--HIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHH--HHHhCCHHHHHHHHHHHhcc
Confidence            33344556666666666655421 112223333333  34566666666666666554

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=84.92  E-value=25  Score=30.54  Aligned_cols=140  Identities=17%  Similarity=0.156  Sum_probs=92.8

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 045379          162 KAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSF  241 (352)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  241 (352)
                      ......|++.+|..+|+...+.. +-+...--.+..+|...|+.+.|..++..+...--.........-|..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            34567899999999999988763 23356777899999999999999999999865422222222223344445555554


Q ss_pred             HHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHH
Q 045379          242 MALKLFNEMRSHKCKP-NICTYTALVNAFAREGLCEEAEEIFEQLQGA-GIEPDVYAYNALMEAYR  305 (352)
Q Consensus       242 ~a~~l~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~-~~~p~~~~~~~li~a~~  305 (352)
                      +...+-...-.   .| |...-..+...+...|+.++|++.+-.+.+. .-.-|...-..+++.+.
T Consensus       221 ~~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~  283 (304)
T COG3118         221 EIQDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFE  283 (304)
T ss_pred             CHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHH
Confidence            44444444443   24 6666677788899999999999888777654 22334444455555444

>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=83.93  E-value=28  Score=30.23  Aligned_cols=163  Identities=14%  Similarity=0.047  Sum_probs=94.8

Q ss_pred             HHHHHHHHHHccCCHHH---HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKK---AEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYID  197 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~---a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  197 (352)
                      +...++.+|...+..+.   |.++++.+..... -.+..+..-+..+.+.++.+.+.+++.+|...- ..+...+..++.
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~-~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~l~  163 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEYG-NKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSILH  163 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCC-CCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHHHH
Confidence            78888899988877664   5555556643332 235566666777777999999999999998862 223355555555


Q ss_pred             HH---HcCCCHHHHHHHHHHHHHcCCCCCHH-HHHH-HHHH---HHhcCC------HHHHHHHHHHHHh-CCCCCCHHHH
Q 045379          198 GL---LKGGNPQKAVEIFQRMKRDCCQPSTE-TYTL-MINL---YGKASK------SFMALKLFNEMRS-HKCKPNICTY  262 (352)
Q Consensus       198 ~~---~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~-li~~---~~~~g~------~~~a~~l~~~m~~-~g~~p~~~t~  262 (352)
                      .+   ... ....|...+..+....+.|... .... ++..   ..+.++      .+...++++...+ .+.+.+..+-
T Consensus       164 ~i~~l~~~-~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~  242 (278)
T PF08631_consen  164 HIKQLAEK-SPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAA  242 (278)
T ss_pred             HHHHHHhh-CcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHH
Confidence            55   333 3456667777666555555553 1111 1111   112111      4445555554333 2334444433


Q ss_pred             HHH-------HHHHHhcCCHHHHHHHHHHHH
Q 045379          263 TAL-------VNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       263 ~~l-------i~~~~~~g~~~~a~~l~~~m~  286 (352)
                      .++       ...+.+++++++|.+.|+-..
T Consensus       243 ~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  243 SAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            222       233557899999999998543

It is also involved in sporulation [].

>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=83.83  E-value=22  Score=29.04  Aligned_cols=75  Identities=13%  Similarity=0.060  Sum_probs=52.2

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHH---cCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          169 LLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKR---DCCQPSTETYTLMINLYGKASKSFMAL  244 (352)
Q Consensus       169 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~~~~~li~~~~~~g~~~~a~  244 (352)
                      .-+.|...|-++...+.--++...-.|...|. ..+.+++.+++.+..+   .+-.+|+..+..|.+.|.+.|+++.|.
T Consensus       121 ~d~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  121 GDQEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             CcHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            34667777777777766666666666666555 4577788888777655   233567888888888888888887764

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.54  E-value=21  Score=28.52  Aligned_cols=136  Identities=13%  Similarity=0.011  Sum_probs=95.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHH-
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTED-TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAV-VYNSYID-  197 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~-~~~~li~-  197 (352)
                      .|..-++ ..+.+..++|+.-|..+.+.|..--+. ...-......+.|+...|...|++.-...-.|-.. -..-|=. 
T Consensus        61 ~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa  139 (221)
T COG4649          61 AFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAA  139 (221)
T ss_pred             HHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHH
Confidence            3444444 456788899999999999877653332 22333445677899999999999987765444332 2222222 


Q ss_pred             -HHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 045379          198 -GLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKP  257 (352)
Q Consensus       198 -~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p  257 (352)
                       .+...|.++....-.+.+-..+-+.-...-..|--+-.+.|++..|.+.|..+......|
T Consensus       140 ~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         140 YLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence             345678999999988888777655556666778888889999999999999987643334

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=83.38  E-value=21  Score=28.48  Aligned_cols=165  Identities=19%  Similarity=0.044  Sum_probs=117.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHHcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLK-AYCMSGLLEKAEAVFREMRKYGL--PPSAVVYNSYID  197 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~-~~~~~g~~~~a~~~~~~m~~~g~--~~~~~~~~~li~  197 (352)
                      .+......+...+.+..+.+.+.........+. ........ .+...|+++.+...+.+......  ......+.....
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  175 (291)
T COG0457          97 ALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGA  175 (291)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhh
Confidence            455566667777788999999998887554431 22222223 78899999999999999855221  123444455555


Q ss_pred             HHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHH
Q 045379          198 GLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN-ICTYTALVNAFAREGLCE  276 (352)
Q Consensus       198 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~  276 (352)
                      .+...++.+.+...+.+..+.........+..+-..+...++++.|...+......  .|+ ...+..+...+...+..+
T Consensus       176 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~  253 (291)
T COG0457         176 LLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYE  253 (291)
T ss_pred             HHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHH
Confidence            57788999999999999887632214677888888999999999999999988765  333 445555555555777899


Q ss_pred             HHHHHHHHHHHC
Q 045379          277 EAEEIFEQLQGA  288 (352)
Q Consensus       277 ~a~~l~~~m~~~  288 (352)
                      .+...+.+....
T Consensus       254 ~~~~~~~~~~~~  265 (291)
T COG0457         254 EALEALEKALEL  265 (291)
T ss_pred             HHHHHHHHHHHh
Confidence            999888888765

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=83.30  E-value=33  Score=30.58  Aligned_cols=26  Identities=12%  Similarity=-0.092  Sum_probs=14.4

Q ss_pred             CHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          317 DRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       317 ~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ...++..+...+.++|+++.|...+.
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~  170 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALN  170 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHH
Confidence            34455555555666666665555543

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

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

Probab=82.97  E-value=4.6  Score=21.84  Aligned_cols=28  Identities=32%  Similarity=0.336  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          260 CTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       260 ~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      .+|..+...|...|++++|+..|++..+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            4567777778888888888888877764

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 ....

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=82.91  E-value=22  Score=30.64  Aligned_cols=91  Identities=13%  Similarity=0.004  Sum_probs=63.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 045379          122 SILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK  201 (352)
Q Consensus       122 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  201 (352)
                      ...=|.+++..++|.+++...-+--+.--+..+...-..|-.|.+.+.+..+.++-..=.+.--.-....|.+++..|..
T Consensus        86 cvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl  165 (309)
T PF07163_consen   86 CVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLL  165 (309)
T ss_pred             hhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHH
Confidence            34457889999999999887766654333344556666677788999999888887665543222334457777776665


Q ss_pred             -----CCCHHHHHHHH
Q 045379          202 -----GGNPQKAVEIF  212 (352)
Q Consensus       202 -----~g~~~~a~~~~  212 (352)
                           .|.+++|+++.
T Consensus       166 ~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  166 HVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHhccccHHHHHHHH
Confidence                 69999999887

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

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=82.35  E-value=21  Score=27.57  Aligned_cols=92  Identities=7%  Similarity=0.096  Sum_probs=49.4

Q ss_pred             HhCCCCCCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHcCCC-HHHHHHHHHHHHH
Q 045379          146 LDSRCIPTED--TYALLLKAYCMSGLLEKAEAVFREMRKYG-----LPPSAVVYNSYIDGLLKGGN-PQKAVEIFQRMKR  217 (352)
Q Consensus       146 ~~~~~~p~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~g-----~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~  217 (352)
                      .+.+..++..  ..++++.-....+.+.....+++.+..-.     -..+..+|+.++++.+.... --.+..+|..|++
T Consensus        29 ~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~  108 (145)
T PF13762_consen   29 QEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKK  108 (145)
T ss_pred             hhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHH
Confidence            3344444443  45666666666667777766666663210     01233456666666544444 3345555666665


Q ss_pred             cCCCCCHHHHHHHHHHHHhc
Q 045379          218 DCCQPSTETYTLMINLYGKA  237 (352)
Q Consensus       218 ~~~~~~~~~~~~li~~~~~~  237 (352)
                      .+.+++..-|..+|.++.+-
T Consensus       109 ~~~~~t~~dy~~li~~~l~g  128 (145)
T PF13762_consen  109 NDIEFTPSDYSCLIKAALRG  128 (145)
T ss_pred             cCCCCCHHHHHHHHHHHHcC
Confidence            55556666666666655543

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

Probab=82.26  E-value=5.1  Score=21.65  Aligned_cols=24  Identities=29%  Similarity=0.300  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Q 045379          157 YALLLKAYCMSGLLEKAEAVFREM  180 (352)
Q Consensus       157 ~~~li~~~~~~g~~~~a~~~~~~m  180 (352)
                      |..+..++...|++++|+..|++.
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~a   27 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRA   27 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHH
Confidence            333444444444444444444443

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 ....

>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=81.51  E-value=3.1  Score=21.24  Aligned_cols=24  Identities=8%  Similarity=0.035  Sum_probs=20.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcC
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDS   88 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~   88 (352)
                      ....+...+...|++++|..++++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~~   26 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLRR   26 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHhC
Confidence            456788899999999999998863

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

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=81.36  E-value=3.1  Score=22.95  Aligned_cols=21  Identities=29%  Similarity=0.324  Sum_probs=9.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHH
Q 045379          223 STETYTLMINLYGKASKSFMA  243 (352)
Q Consensus       223 ~~~~~~~li~~~~~~g~~~~a  243 (352)
                      +..+|+.+-..|...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            334444444444444444444

>PF04910 Tcf25: Transcriptional repressor TCF25; InterPro: IPR006994 This entry appears to represent a novel family of basic helix-loop-helix (bHLH) proteins that control differentiation and development of a variety of organs [, ]

Probab=81.23  E-value=42  Score=30.43  Aligned_cols=168  Identities=11%  Similarity=-0.034  Sum_probs=96.1

Q ss_pred             CcCcchhHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHH-HHHHHHHH------HhhccCcchhhH---HhHHHHHHHHH
Q 045379           59 FPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWD-DLINVSVQ------LRLNKKWDPIVL---MSCVSILLIEA  128 (352)
Q Consensus        59 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~l~~~~~~------~~~~~~~~~~~~---~~~~~~~li~~  128 (352)
                      +|-..++.-.+...+..+|+.+.|-+++++..   .++. ++...+..      .|....--...+   .+.+.-.-|..
T Consensus        36 ~PyHidtLlqls~v~~~~gd~~~A~~lleRAL---f~~e~~~~~~F~~~~~~~~~g~~rL~~~~~eNR~fflal~r~i~~  112 (360)
T PF04910_consen   36 NPYHIDTLLQLSEVYRQQGDHAQANDLLERAL---FAFERAFHPSFSPFRSNLTSGNCRLDYRRPENRQFFLALFRYIQS  112 (360)
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH---HHHHHHHHHHhhhhhcccccCccccCCccccchHHHHHHHHHHHH
Confidence            44455566677777778888887776666542   1111 11111110      000000000000   11144556778


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHC------CCCCCHHHHHHHHHHHHc
Q 045379          129 YGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYC-MSGLLEKAEAVFREMRKY------GLPPSAVVYNSYIDGLLK  201 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~-~~g~~~~a~~~~~~m~~~------g~~~~~~~~~~li~~~~~  201 (352)
                      +.+.|.+..|+++-+-+..-+..-|+.....+|+.|+ +.++++-.+++.+.....      ..-|+ ..|+..+..+..
T Consensus       113 L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~ALrs~~y~~Li~~~~~~~~~~~~~~~~~lPn-~a~S~aLA~~~l  191 (360)
T PF04910_consen  113 LGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYALRSRQYQWLIDFSESPLAKCYRNWLSLLPN-FAFSIALAYFRL  191 (360)
T ss_pred             HHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHhcCCHHHHHHHHHhHhhhhhhhhhhhCcc-HHHHHHHHHHHh
Confidence            8999999999999999998777667887888888765 577888888888776552      12343 566655554443


Q ss_pred             CCC--------------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 045379          202 GGN--------------PQKAVEIFQRMKRDCCQPSTETYTLMINLY  234 (352)
Q Consensus       202 ~g~--------------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  234 (352)
                      .+.              .+.|...+.+....    -+.+...|+..+
T Consensus       192 ~~~~~~~~~~~~~~~~~~~~A~~~L~~Ai~~----fP~vl~~Ll~~l  234 (360)
T PF04910_consen  192 EKEESSQSSAQSGRSENSESADEALQKAILR----FPWVLVPLLDKL  234 (360)
T ss_pred             cCccccccccccccccchhHHHHHHHHHHHH----hHHHHHHHHHHh
Confidence            332              26676666665543    234444454444

Human Nulp1 (Q2MK75 from SWISSPROT) is a basic helix-loop-helix protein expressed broadly during early embryonic organogenesis. Over expression of human Nulp1 in COS-7 cells inhibits the transcriptional activity of serum response factor (SRF), suggesting that Nulp1 may act as a novel bHLH transcriptional repressor in the SRF signalling pathway to mediate cellular functions [].

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=81.14  E-value=8.4  Score=37.34  Aligned_cols=168  Identities=18%  Similarity=0.185  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|..-+..+..+++..  ....+.+..+-+..+...-.-++..|.+.|-.+.|.++.+.+-.+-.  ...-|..-+.-+.
T Consensus       374 lW~vai~yL~~c~~~g--~~~i~~lL~~~p~~t~~~~~k~l~iC~~~~L~~~a~~I~~~~~~~~~--~~~~~g~AL~~~~  449 (566)
T PF07575_consen  374 LWQVAIGYLSSCPDEG--RERIEELLPRVPLDTNDDAEKLLEICAELGLEDVAREICKILGQRLL--KEGRYGEALSWFI  449 (566)
T ss_dssp             THHHHHHHHHS-SSS---HHHHHHHGGG----SHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHH--HHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHCChhh--HHHHHHHHhhCCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH--HCCCHHHHHHHHH
Confidence            4554444444444322  44555555444446777778888889999988888888887755422  1245666666677


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHH---HHHHHHHHHHhcCCHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH-KCKPNIC---TYTALVNAFAREGLCE  276 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~-g~~p~~~---t~~~li~~~~~~g~~~  276 (352)
                      ++|+...+..+-+.+.+               .|+..|... ..++.+.+... .+.+...   +|.-.-.. .+.|++.
T Consensus       450 ra~d~~~v~~i~~~ll~---------------~~~~~~~~~-~~~ll~~i~~~~~~~~~L~fla~yreF~~~-~~~~~~~  512 (566)
T PF07575_consen  450 RAGDYSLVTRIADRLLE---------------EYCNNGEPL-DDDLLDNIGSPMLLSQRLSFLAKYREFYEL-YDEGDFR  512 (566)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HCCCHHHHHHHHHHHHH---------------HHhcCCCcc-cHHHHHHhcchhhhhhhhHHHHHHHHHHHH-HhhhhHH
Confidence            77776665555544443               222222211 11111111110 0111111   11111111 2458888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
Q 045379          277 EAEEIFEQLQGAGIEPDVYAYNALMEAYRLISR  309 (352)
Q Consensus       277 ~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~  309 (352)
                      +|.+.+-.+.+.+..|...-...|.++.-+++.
T Consensus       513 ~Aa~~Lv~Ll~~~~~Pk~f~~~LL~d~lplL~~  545 (566)
T PF07575_consen  513 EAASLLVSLLKSPIAPKSFWPLLLCDALPLLES  545 (566)
T ss_dssp             ---------------------------------
T ss_pred             HHHHHHHHHHCCCCCcHHHHHHHHHHHHHHhCC
Confidence            998888888888888887777777777665544

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.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=81.05  E-value=1.8  Score=23.92  Aligned_cols=25  Identities=20%  Similarity=0.272  Sum_probs=22.3

Q ss_pred             CCCHHHHHHHHHHHHHcCCcchhHH
Q 045379          315 EPDRASYNIMVDAYGRAGLHEGKCS  339 (352)
Q Consensus       315 ~p~~~~~~~li~a~~~~g~~~~A~~  339 (352)
                      +-|...|..+...|...|++++|++
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            4589999999999999999999963

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=80.67  E-value=37  Score=29.46  Aligned_cols=141  Identities=14%  Similarity=0.147  Sum_probs=101.5

Q ss_pred             ccCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHHc--CCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHcCCCHH
Q 045379          131 QKSLHKKAEFTYLELLD-SRCIPTEDTYALLLKAYCMS--GLLEKAEAVFREMRK-YGLPPSAVVYNSYIDGLLKGGNPQ  206 (352)
Q Consensus       131 ~~g~~~~a~~l~~~m~~-~~~~p~~~~~~~li~~~~~~--g~~~~a~~~~~~m~~-~g~~~~~~~~~~li~~~~~~g~~~  206 (352)
                      +...+.+|+++|+...- ..+--|......+++.....  .....-.++.+.+.. .|-.++..+...+|..+++.++|.
T Consensus       140 ~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~  219 (292)
T PF13929_consen  140 RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWN  219 (292)
T ss_pred             hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHH
Confidence            34456778888874432 34556888888888877762  234444555555553 356788889999999999999999


Q ss_pred             HHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-----HHhCCCCCCHHHHHHHHHHHHh
Q 045379          207 KAVEIFQRMKRD-CCQPSTETYTLMINLYGKASKSFMALKLFNE-----MRSHKCKPNICTYTALVNAFAR  271 (352)
Q Consensus       207 ~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~-----m~~~g~~p~~~t~~~li~~~~~  271 (352)
                      +-.++++.-... +..-|...|..+|..-...|+..-..++.++     +...++..+...-..+-..+.+
T Consensus       220 kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~~  290 (292)
T PF13929_consen  220 KLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFKK  290 (292)
T ss_pred             HHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHHh
Confidence            999999887665 5566888999999999999999888888775     3455677666665555555443

---

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	352
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-20
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-08
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	6e-05
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	2e-04
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	3e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 92.6 bits (228), Expect = 1e-20
 Identities = 21/195 (10%), Positives = 57/195 (29%), Gaps = 4/195 (2%)

Query: 125 LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAV---FREMR 181
           L++    K      +    +   ++    +       K   ++  L  A  +       R
Sbjct: 98  LLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQR 157

Query: 182 KYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSF 241
           +     +  +YN+ + G  + G  ++ V +   +K     P   +Y   +   G+  +  
Sbjct: 158 QKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDA 217

Query: 242 MAL-KLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNAL 300
             + +   +M     K        L++   R  + +   ++          P     + L
Sbjct: 218 GTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKL 277

Query: 301 MEAYRLISRMHMGCE 315
           +             +
Sbjct: 278 LRDVYAKDGRVSYPK 292

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 65.2 bits (157), Expect = 1e-11
 Identities = 25/181 (13%), Positives = 47/181 (25%), Gaps = 56/181 (30%)

Query: 152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEI 211
           P E+  A LL+       L+  +A   +  +  L        ++    L       A  +
Sbjct: 90  PWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHL 149

Query: 212 FQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR 271
                                                  R  +    +  Y A++  +AR
Sbjct: 150 LVVHHG--------------------------------QRQKRKLLTLDMYNAVMLGWAR 177

Query: 272 EGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRA 331
           +G  +E   +   ++ AG+ PD+                         SY   +   GR 
Sbjct: 178 QGAFKELVYVLFMVKDAGLTPDLL------------------------SYAAALQCMGRQ 213

Query: 332 G 332
            
Sbjct: 214 D 214

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 53.7 bits (128), Expect = 6e-08
 Identities = 56/379 (14%), Positives = 97/379 (25%), Gaps = 130/379 (34%)

Query: 9   VSVKKYNRDG----------FFIDKNGKLRSFNHKKLSRKRCGSLRG------KGWKYGS 52
           +++K  N             + ID N   RS +   + + R  S++       K   Y  
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI-KLRIHSIQAELRRLLKSKPY-- 243

Query: 53  GFVDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKW 112
                           +L      V +   W+AF+                         
Sbjct: 244 -----------ENCLLVLL----NVQNAKAWNAFN------------------------- 263

Query: 113 DPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEK 172
                +SC  ILL   +       K    +L    +  I  +     L      S LL K
Sbjct: 264 -----LSC-KILLTTRF-------KQVTDFLSAATTTHISLDHHSMTLTPDEVKS-LLLK 309

Query: 173 AEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMIN 232
               + + R   LP                 NP+  + I     RD    +T      +N
Sbjct: 310 ----YLDCRPQDLPREV-----------LTTNPR-RLSIIAESIRD--GLATWDNWKHVN 351

Query: 233 LYGKA---SKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREG-------LC------- 275
                     S   L+   E R          +  L   F           L        
Sbjct: 352 CDKLTTIIESSLNVLE-PAEYRKM--------FDRLS-VF-PPSAHIPTILLSLIWFDVI 400

Query: 276 -EEAEEIFEQLQGAGI---EPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRA 331
             +   +  +L    +   +P             +   + +  E + A +  +VD Y   
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKESTI----SIPSIYLELKVKLENEYALHRSIVDHY--- 453

Query: 332 GLHEGKCSYSLVELSVKHY 350
            + +   S  L+   +  Y
Sbjct: 454 NIPKTFDSDDLIPPYLDQY 472

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus} Length = 208

 Score = 42.4 bits (100), Expect = 6e-05
 Identities = 21/180 (11%), Positives = 56/180 (31%), Gaps = 14/180 (7%)

Query: 136 KKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSY 195
            + E  Y   +D     +      L  AY  +   +KA   ++E+ +   P +     + 
Sbjct: 36  DRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEAC 94

Query: 196 IDGLLKGGNPQKAVEIFQR-MKRDCCQPS-TETYTLMINLYGKASKSFM-ALKLFNEMRS 252
            +  +  G  + A+ ++++ ++ +            + N Y   ++     L+     + 
Sbjct: 95  AEMQVCRGQEKDALRMYEKILQLE---ADNLAANIFLGNYYYLTAEQEKKKLETDY--KK 149

Query: 253 HKCKP-NICTYTALVNAFAREGLCEEAEEIFEQ-LQGAGIEPDVYAYNALMEAYRLISRM 310
                           +       E+A    ++ +      P   A   L +  R+   +
Sbjct: 150 LSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL---RFPSTEAQKTLDKILRIEKEV 206

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 42.5 bits (100), Expect = 2e-04
 Identities = 26/166 (15%), Positives = 50/166 (30%), Gaps = 26/166 (15%)

Query: 157 YALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMK 216
           Y L L        L +AE     +   GL  S+ +     D L         + I  ++ 
Sbjct: 275 YMLKLNKTSHEDELRRAEDYLSSI--NGLEKSSDLLLCKADTLFVRSRFIDVLAITTKIL 332

Query: 217 RDCCQP-STETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN-ICTYTALVNAFAREGL 274
                P + + Y L +    ++ +      + N++      P    T+ A+   +     
Sbjct: 333 EI--DPYNLDVYPLHLASLHESGEKNKLYLISNDL--VDRHPEKAVTWLAVGIYYLCVNK 388

Query: 275 CEEAEEIFEQ-LQGAGIEPD-VYAYNAL-------------MEAYR 305
             EA   F +      ++P    A+                + AY 
Sbjct: 389 ISEARRYFSKSST---MDPQFGPAWIGFAHSFAIEGEHDQAISAYT 431

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7 Length = 308

 Score = 41.2 bits (96), Expect = 3e-04
 Identities = 18/106 (16%), Positives = 34/106 (32%), Gaps = 1/106 (0%)

Query: 200 LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNI 259
                  +A  I++R      + +   Y    +      K      ++N + + +     
Sbjct: 75  NAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPT 134

Query: 260 CTYTALVNAFAREGLCEEAEEIFEQ-LQGAGIEPDVYAYNALMEAY 304
             Y   +    R    +    IF++  + A     VY   ALME Y
Sbjct: 135 LVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYY 180

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	352
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	99.93
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.92
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.86
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.84
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.84
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.83
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.82
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.73
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.71
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.71
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.7
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.69
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.67
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.67
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.64
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.64
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.63
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.63
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.61
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.61
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.59
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.59
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.59
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.57
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.56
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.55
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.54
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.54
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.53
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.53
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.53
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.52
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.51
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.51
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.51
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.47
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.45
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.44
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.42
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.4
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.38
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.38
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.37
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.37
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.36
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.36
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.35
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.34
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.34
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.33
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.32
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.31
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.29
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.26
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.25
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.25
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.25
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.25
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.24
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.24
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.24
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.24
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.24
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.19
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.19
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.18
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.17
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.17
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.16
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.13
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.13
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.13
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.11
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.1
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.1
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.1
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.09
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.09
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.05
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.03
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.02
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.99
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.98
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.97
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.96
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.9
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.89
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.85
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.84
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.84
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.81
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.76
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.76
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.76
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.75
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.75
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.75
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.74
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.72
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.71
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.71
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.7
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.7
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.69
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.66
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.65
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.65
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.65
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.64
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.62
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.61
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.61
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.6
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.6
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.6
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.58
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.58
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.57
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.52
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.52
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.51
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.49
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.48
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.47
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.46
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.45
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.45
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.44
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.44
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.42
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.41
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.41
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.4
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.38
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.37
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.35
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.32
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.3
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.3
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.3
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.27
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.27
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.27
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.26
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.26
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.26
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.25
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.25
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.25
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.24
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.24
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.24
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.23
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.22
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.21
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.21
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.2
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.19
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.19
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.17
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.16
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.14
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.12
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.11
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.1
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.07
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.07
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.0
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.96
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.96
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.95
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.95
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.94
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.92
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.92
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.91
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.88
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.87
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.86
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.83
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.82
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.79
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.76
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.75
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.72
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.65
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.63
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.63
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.61
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.58
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.55
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.52
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.44
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.4
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.38
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.36
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	97.33
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.31
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.27
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.26
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.25
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.22
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.2
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.97
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	96.96
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.96
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.94
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.85
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.68
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.65
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	96.59
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.5
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.3
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.2
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.11
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.1
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.97
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.28
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.01
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.91
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.84
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.69
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	94.65
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.27
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	94.2
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.87
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.29
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.95
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	92.2
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.89
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	91.17
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	91.11
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	90.67
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	90.21
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	89.18
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	88.69
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	87.88
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	87.13
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	87.01
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	86.88
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	85.16
2p58_C	116	Putative type III secretion protein YSCG; type III	85.14
2zu6_B	307	Programmed cell death protein 4; protein-protein c	84.91
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	84.49
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	84.12
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	83.38
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	83.33
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	82.78
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	82.51
2p58_C	116	Putative type III secretion protein YSCG; type III	81.78
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	80.9

>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=3.4e-35  Score=274.13  Aligned_cols=185  Identities=14%  Similarity=0.154  Sum_probs=180.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC---------HHHHHHHHHHHHHCCCCCCHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGL---------LEKAEAVFREMRKYGLPPSAVV  191 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~---------~~~a~~~~~~m~~~g~~~~~~~  191 (352)
                      .++.+|++|++.|++++|+++|++|.+.|++||..||++||.+|++.+.         ++.|.++|++|.+.|+.||..|
T Consensus        28 ~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~t  107 (501)
T 4g26_A           28 LLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEAT  107 (501)
T ss_dssp             HHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHH
Confidence            5788899999999999999999999999999999999999999998765         6889999999999999999999


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 045379          192 YNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR  271 (352)
Q Consensus       192 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~  271 (352)
                      |+++|.+|++.|++++|.++|++|.+.|+.||..|||.||.+|++.|++++|.++|++|.+.|+.||..||++||.+|++
T Consensus       108 yn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~  187 (501)
T 4g26_A          108 FTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMD  187 (501)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          272 EGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR  305 (352)
Q Consensus       272 ~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~  305 (352)
                      .|++++|.+++++|++.|..|+..||+.++..|+
T Consensus       188 ~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~  221 (501)
T 4g26_A          188 TKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFK  221 (501)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHh
Confidence            9999999999999999999999999999999887

>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=1.8e-33  Score=262.43  Aligned_cols=197  Identities=16%  Similarity=0.232  Sum_probs=172.9

Q ss_pred             HHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC---------H
Q 045379          136 KKAEFTYLELLDSRCIPTED-TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGN---------P  205 (352)
Q Consensus       136 ~~a~~l~~~m~~~~~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~---------~  205 (352)
                      ..+..+.+++.+.+..+++. .++.+|++|++.|++++|.++|++|.+.|+.||..|||+||.+|++.+.         +
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            44566667777777766654 6899999999999999999999999999999999999999999998765         6


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          206 QKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      ++|.++|++|.+.|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|
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             HHCCCCCCHHHHHHHHHHHH----------HHHHH-hcCCCCCHHHHHHHHHHHHHcC
Q 045379          286 QGAGIEPDVYAYNALMEAYR----------LISRM-HMGCEPDRASYNIMVDAYGRAG  332 (352)
Q Consensus       286 ~~~~~~p~~~~~~~li~a~~----------~~~~m-~~~~~p~~~~~~~li~a~~~~g  332 (352)
                      .+.|+.||..||++||.+|+          ++++| +.+..|+..||+.++..|+..+
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~  224 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEV  224 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCc
Confidence            99999999999999999998          99999 9999999999999999998754

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

Probab=99.93  E-value=4.5e-24  Score=204.20  Aligned_cols=273  Identities=11%  Similarity=0.007  Sum_probs=240.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhcCCC---CchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCC
Q 045379           66 AQQILRFVQREVDSNTIWDAFDSLP---PTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSL  134 (352)
Q Consensus        66 ~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~  134 (352)
                      ++.++..|.+.|++++|.++|+++.   ++..+|+.++.++.+.|+.+.+..++..+.        +|+.++.+|.+.|+
T Consensus       275 ~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  354 (597)
T 2xpi_A          275 YMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGE  354 (597)
T ss_dssp             HHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTC
T ss_pred             HHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCC
Confidence            4455778889999999999999885   689999999999999999888877776654        89999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHH
Q 045379          135 HKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQR  214 (352)
Q Consensus       135 ~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  214 (352)
                      +++|.++++++.+.. +.+..+|+.++..|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|++
T Consensus       355 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  432 (597)
T 2xpi_A          355 KNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTT  432 (597)
T ss_dssp             HHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999998643 3578899999999999999999999999998753 45688999999999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC
Q 045379          215 MKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA----GI  290 (352)
Q Consensus       215 m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~----~~  290 (352)
                      +.+.+ +.+..+|+.++.+|.+.|++++|.++|+++.+.. +.+..+|+.++..|.+.|++++|.++|+++.+.    +.
T Consensus       433 ~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  510 (597)
T 2xpi_A          433 AARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQS  510 (597)
T ss_dssp             HHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhcccc
Confidence            98864 4578999999999999999999999999998753 457899999999999999999999999999876    77


Q ss_pred             CCC--HHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          291 EPD--VYAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       291 ~p~--~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .|+  ..+|..+..+|.          .++++....+.+..+|..+..+|.+.|++++|.++|.
T Consensus       511 ~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  574 (597)
T 2xpi_A          511 NEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLH  574 (597)
T ss_dssp             CSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            888  789999998887          7777722225689999999999999999999999986

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

Probab=99.92  E-value=9.4e-23  Score=195.01  Aligned_cols=188  Identities=11%  Similarity=0.001  Sum_probs=135.9

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC---------------------------------CCCCHHHHHHHHHH
Q 045379          152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG---------------------------------LPPSAVVYNSYIDG  198 (352)
Q Consensus       152 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---------------------------------~~~~~~~~~~li~~  198 (352)
                      ++..+++.++.+|.+.|++++|.++|+++.+.+                                 .+.+..+++.++.+
T Consensus       303 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  382 (597)
T 2xpi_A          303 KSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIY  382 (597)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHHH
Confidence            455566666666666666666666666665432                                 23456777778888


Q ss_pred             HHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 045379          199 LLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEA  278 (352)
Q Consensus       199 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  278 (352)
                      |.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..+|+.++.+|.+.|++++|
T Consensus       383 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A  460 (597)
T 2xpi_A          383 YLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLA  460 (597)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            888888888888888877653 3357788888888888888888888888887653 34677788888888888888888


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHH-hc----CCCCC--HHHHHHHHHHHHHcCCcchhHHHH
Q 045379          279 EEIFEQLQGAGIEPDVYAYNALMEAYR----------LISRM-HM----GCEPD--RASYNIMVDAYGRAGLHEGKCSYS  341 (352)
Q Consensus       279 ~~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m-~~----~~~p~--~~~~~~li~a~~~~g~~~~A~~~~  341 (352)
                      .++|+++.+.. ..+..+|+.+...|.          +|+++ ..    +..|+  ..+|..++.+|.+.|++++|.++|
T Consensus       461 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~  539 (597)
T 2xpi_A          461 NEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDAL  539 (597)
T ss_dssp             HHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            88888887643 236777777777665          66666 32    56776  778888888888888888888887


Q ss_pred             H
Q 045379          342 L  342 (352)
Q Consensus       342 ~  342 (352)
                      .
T Consensus       540 ~  540 (597)
T 2xpi_A          540 N  540 (597)
T ss_dssp             H
T ss_pred             H
Confidence            6

>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=99.86  E-value=2.2e-18  Score=156.04  Aligned_cols=280  Identities=13%  Similarity=0.043  Sum_probs=235.2

Q ss_pred             CcCcchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHH
Q 045379           59 FPVLSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLI  126 (352)
Q Consensus        59 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li  126 (352)
                      .|.....+..+...|.+.|++++|...|+++    |.+...|..+..++...|+.+.+...+....        .+..+.
T Consensus        63 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~  142 (388)
T 1w3b_A           63 NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLG  142 (388)
T ss_dssp             CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHH
T ss_pred             CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence            4555668899999999999999999998865    3456689999999998888877766665543        778888


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHH
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQ  206 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  206 (352)
                      ..+...|++++|.+.|.++.+... -+..+|..+...+...|++++|...|+++.+.+ +.+...+..+...+...|+++
T Consensus       143 ~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~  220 (388)
T 1w3b_A          143 NLLKALGRLEEAKACYLKAIETQP-NFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFD  220 (388)
T ss_dssp             HHHHTTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTT
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHH
Confidence            999999999999999999987542 357799999999999999999999999998864 456788899999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          207 KAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       207 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                      +|...|++..+.. +.+..++..+..+|.+.|++++|++.|+++.+.. +.+..+|..+...+.+.|++++|.+.|+++.
T Consensus       221 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  298 (388)
T 1w3b_A          221 RAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTAL  298 (388)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999988763 3368899999999999999999999999998864 3357789999999999999999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHHH
Q 045379          287 GAGIEPDVYAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLV  343 (352)
Q Consensus       287 ~~~~~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~~  343 (352)
                      +.. ..+..+++.+...+.          .++++....+.+..++..+..+|.+.|++++|.+.|..
T Consensus       299 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  364 (388)
T 1w3b_A          299 RLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKE  364 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             hhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            763 456788888877665          66666444566789999999999999999999999863

>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=3.6e-21  Score=185.84  Aligned_cols=148  Identities=13%  Similarity=0.179  Sum_probs=128.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLD---SRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYID  197 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~---~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  197 (352)
                      +||+||++|++.|++++|.++|.+|.+   .|+.||..|||+||++||+.|++++|.++|++|.+.|+.||..|||++|+
T Consensus       129 TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~  208 (1134)
T 3spa_A          129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ  208 (1134)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            999999999999999999999988764   58999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCC-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC------HHHHHHHHHHHH
Q 045379          198 GLLKGGN-PQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN------ICTYTALVNAFA  270 (352)
Q Consensus       198 ~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~------~~t~~~li~~~~  270 (352)
                      ++++.|+ .++|.++|++|.+.|+.||..+|+.+++++.+.    .+++..+++ ..+.+|+      ..+...|.+.|.
T Consensus       209 glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl~s  283 (1134)
T 3spa_A          209 CMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDVYA  283 (1134)
T ss_dssp             HHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHHHC
T ss_pred             HHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHHHHc
Confidence            9999998 478999999999999999999999999877764    444444444 3344444      445566677777


Q ss_pred             hcC
Q 045379          271 REG  273 (352)
Q Consensus       271 ~~g  273 (352)
                      +.+
T Consensus       284 ~d~  286 (1134)
T 3spa_A          284 KDG  286 (1134)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            655

>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=2.7e-21  Score=186.71  Aligned_cols=114  Identities=13%  Similarity=0.125  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH---CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRK---YGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMIN  232 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~---~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  232 (352)
                      ||+++|++||+.|++++|.++|++|.+   .|+.||+.|||+||++|++.|++++|.++|++|.+.|+.||..|||+||.
T Consensus       129 TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~  208 (1134)
T 3spa_A          129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ  208 (1134)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            555555555555555555555555432   24555555555555555555555555555555555555555555555555


Q ss_pred             HHHhcCCH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 045379          233 LYGKASKS-FMALKLFNEMRSHKCKPNICTYTALVNAF  269 (352)
Q Consensus       233 ~~~~~g~~-~~a~~l~~~m~~~g~~p~~~t~~~li~~~  269 (352)
                      ++++.|+. ++|.++|++|.+.|+.||..+|+.++.++
T Consensus       209 glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~  246 (1134)
T 3spa_A          209 CMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEE  246 (1134)
T ss_dssp             HHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHH
T ss_pred             HHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChh
Confidence            55555542 44555555555555555555555555443

>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=99.83  E-value=1.9e-17  Score=149.80  Aligned_cols=281  Identities=15%  Similarity=0.002  Sum_probs=233.9

Q ss_pred             CcCcchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHH
Q 045379           59 FPVLSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLI  126 (352)
Q Consensus        59 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li  126 (352)
                      .|........+...+...|++++|...++..    |.+...|..+..++...|+.+.+...+....        +|..+.
T Consensus        29 ~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~  108 (388)
T 1w3b_A           29 EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLA  108 (388)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCcchHHHHHHHH
Confidence            3445557788888899999999998888653    4678899999999999998877777665543        799999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHH
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQ  206 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  206 (352)
                      .++.+.|++++|.+.|.++.+... .+...+..+...+...|++++|.+.|+++.+.. +.+..+|..+...|.+.|+++
T Consensus       109 ~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  186 (388)
T 1w3b_A          109 AALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIW  186 (388)
T ss_dssp             HHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            999999999999999999987542 245577788888999999999999999998763 456789999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          207 KAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       207 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                      +|...|+++.+.+ +.+...+..+...+...|++++|+..|++..... +.+..++..+...|.+.|++++|.+.|+++.
T Consensus       187 ~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  264 (388)
T 1w3b_A          187 LAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAI  264 (388)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999998864 4467889999999999999999999999987653 3357889999999999999999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHHHH
Q 045379          287 GAGIEPDVYAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVE  344 (352)
Q Consensus       287 ~~~~~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~~~  344 (352)
                      +.. ..+..++..+..++.          .++.+....+.+..++..+...+.+.|++++|.++|...
T Consensus       265 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  331 (388)
T 1w3b_A          265 ELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKA  331 (388)
T ss_dssp             HTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             hhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            763 224567777776665          667763345778999999999999999999999998633

>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=99.82  E-value=1.2e-17  Score=153.83  Aligned_cols=277  Identities=13%  Similarity=0.102  Sum_probs=225.9

Q ss_pred             CcCcchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHH
Q 045379           59 FPVLSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLI  126 (352)
Q Consensus        59 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li  126 (352)
                      .|.....+..+...|.+.|++++|...|+++    |.+...|..+..++...|+.+.+...+....        +|..+.
T Consensus        22 ~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~  101 (450)
T 2y4t_A           22 SMADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRG  101 (450)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHH
Confidence            3444557789999999999999999999865    4678899999999999988877776665543        899999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCC-H---HHHHHH------------HHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPT-E---DTYALL------------LKAYCMSGLLEKAEAVFREMRKYGLPPSAV  190 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~-~---~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~  190 (352)
                      ..|.+.|++++|.+.|+++.+..  |+ .   ..+..+            ...+...|++++|...++++.+.. +.+..
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  178 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSN--PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAE  178 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChH
Confidence            99999999999999999999854  44 3   555555            444889999999999999998763 45788


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH-----
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTAL-----  265 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~l-----  265 (352)
                      ++..+..+|.+.|++++|...|+++.+.. +.+..++..+...|...|++++|+..|+++.... +.+...+..+     
T Consensus       179 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~~~  256 (450)
T 2y4t_A          179 LRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKK  256 (450)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHHHH
Confidence            99999999999999999999999998763 4578999999999999999999999999998652 2344445444     


Q ss_pred             -------HHHHHhcCCHHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHH
Q 045379          266 -------VNAFAREGLCEEAEEIFEQLQGAGIEPD-----VYAYNALMEAYR----------LISRMHMGCEPDRASYNI  323 (352)
Q Consensus       266 -------i~~~~~~g~~~~a~~l~~~m~~~~~~p~-----~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~  323 (352)
                             ...|.+.|++++|...|+++.+.  .|+     ...+..+..++.          .++.+....+.+...|..
T Consensus       257 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~  334 (450)
T 2y4t_A          257 LNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKD  334 (450)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHH
Confidence                   78999999999999999999874  454     345555655554          555552223557899999


Q ss_pred             HHHHHHHcCCcchhHHHHH
Q 045379          324 MVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       324 li~a~~~~g~~~~A~~~~~  342 (352)
                      +..+|...|++++|.+.|.
T Consensus       335 l~~~~~~~~~~~~A~~~~~  353 (450)
T 2y4t_A          335 RAEAYLIEEMYDEAIQDYE  353 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHH
Confidence            9999999999999999986

>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=99.73  E-value=3.9e-15  Score=130.87  Aligned_cols=225  Identities=8%  Similarity=-0.113  Sum_probs=176.1

Q ss_pred             CcchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHH
Q 045379           61 VLSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEA  128 (352)
Q Consensus        61 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~  128 (352)
                      ....+...++..+...|++++|..+|+++    |.+...+..++.++...++.+.+...+....        +|..+...
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~   99 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVGCY   99 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHH
Confidence            34457788888999999999999988875    3566677777777777777666555554433        78888888


Q ss_pred             HHccC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH
Q 045379          129 YGQKS-LHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQK  207 (352)
Q Consensus       129 ~~~~g-~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  207 (352)
                      +...| ++++|.+.|++..+... .+...|..+...+...|++++|...+++..+.. +.+...+..+...|...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~  177 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTLEK-TYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKL  177 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTTCT-TCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHH
Confidence            88888 89999999988887543 356678888888999999999999998887764 3345667778888889999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--------CCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          208 AVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHK--------CKPNICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       208 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g--------~~p~~~t~~~li~~~~~~g~~~~a~  279 (352)
                      |...+++..+.. +.+..++..+...+...|++++|...+++..+..        .+.+..++..+...|...|++++|.
T Consensus       178 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  256 (330)
T 3hym_B          178 AERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEAL  256 (330)
T ss_dssp             HHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHH
Confidence            999999888764 4467888888899999999999999988876531        1334568888888899999999999


Q ss_pred             HHHHHHHHC
Q 045379          280 EIFEQLQGA  288 (352)
Q Consensus       280 ~l~~~m~~~  288 (352)
                      ..+++..+.
T Consensus       257 ~~~~~a~~~  265 (330)
T 3hym_B          257 DYHRQALVL  265 (330)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhh
Confidence            999888764

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

Probab=99.71  E-value=5.2e-14  Score=124.92  Aligned_cols=271  Identities=12%  Similarity=0.088  Sum_probs=215.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHcc
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQK  132 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~  132 (352)
                      .+..+...+...|++++|...|++.    |.+...|..+..++...|+.+.+...+....        +|..+...+.+.
T Consensus         5 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~   84 (359)
T 3ieg_A            5 KHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLKQ   84 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHc
Confidence            5567888889999999999998765    4577889889999988888777666665443        899999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCC----CHHHHHHH------------HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 045379          133 SLHKKAEFTYLELLDSRCIP----TEDTYALL------------LKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYI  196 (352)
Q Consensus       133 g~~~~a~~l~~~m~~~~~~p----~~~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li  196 (352)
                      |++++|.+.|++..+..  |    +...+..+            ...+...|++++|.+.++++.+.. +.+...+..+.
T Consensus        85 ~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~  161 (359)
T 3ieg_A           85 GKLDEAEDDFKKVLKSN--PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRA  161 (359)
T ss_dssp             TCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CChHHHHHHHHHHHhcC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHH
Confidence            99999999999998754  4    33444444            578889999999999999998763 45778899999


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH------------H
Q 045379          197 DGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYT------------A  264 (352)
Q Consensus       197 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~------------~  264 (352)
                      ..+...|++++|...+++..+.. +.+..++..+...|...|++++|...|++..+.. +.+...+.            .
T Consensus       162 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~  239 (359)
T 3ieg_A          162 ECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIE  239 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHHHHHH
Confidence            99999999999999999998864 4578899999999999999999999999988753 22333333            2


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHH----HHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHH
Q 045379          265 LVNAFAREGLCEEAEEIFEQLQGAGIEPD-VYA----YNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYG  329 (352)
Q Consensus       265 li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~~----~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~  329 (352)
                      +...+.+.|++++|...++++.+..  |+ ...    +..+..++.          .++......+.+...+..+...|.
T Consensus       240 ~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  317 (359)
T 3ieg_A          240 SAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYL  317 (359)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            3667899999999999999998753  33 222    222223332          555552223558899999999999


Q ss_pred             HcCCcchhHHHHH
Q 045379          330 RAGLHEGKCSYSL  342 (352)
Q Consensus       330 ~~g~~~~A~~~~~  342 (352)
                      +.|++++|.+.|.
T Consensus       318 ~~g~~~~A~~~~~  330 (359)
T 3ieg_A          318 IEEMYDEAIQDYE  330 (359)
T ss_dssp             HTTCHHHHHHHHH
T ss_pred             HcCCHHHHHHHHH
Confidence            9999999999986

>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=99.71  E-value=3.3e-15  Score=133.66  Aligned_cols=263  Identities=13%  Similarity=0.015  Sum_probs=171.4

Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHH
Q 045379           63 SPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYG  130 (352)
Q Consensus        63 ~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~  130 (352)
                      ...+..+...|.+.|++++|...|++.    |.+...|..+..++...|+.+.+...+....        +|..+...|.
T Consensus        64 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~  143 (368)
T 1fch_A           64 HPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFT  143 (368)
T ss_dssp             CSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            446678889999999999999888765    3466677777777776666655555444332        6677777777


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHH---------------HHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHH
Q 045379          131 QKSLHKKAEFTYLELLDSRCIPTEDTYAL---------------LLKAYCMSGLLEKAEAVFREMRKYGLP-PSAVVYNS  194 (352)
Q Consensus       131 ~~g~~~~a~~l~~~m~~~~~~p~~~~~~~---------------li~~~~~~g~~~~a~~~~~~m~~~g~~-~~~~~~~~  194 (352)
                      ..|++++|.+.|+++.+.... +...+..               .+..+...|++++|...++++.+..-. ++..++..
T Consensus       144 ~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~  222 (368)
T 1fch_A          144 NESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCG  222 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHH
Confidence            777777777777777664422 1111111               233333667777777777777664321 14667777


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 045379          195 YIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGL  274 (352)
Q Consensus       195 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~  274 (352)
                      +...|.+.|++++|...|++..+.. +.+..++..+...+...|++++|+..|++..+.. +.+..++..+...|.+.|+
T Consensus       223 l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~  300 (368)
T 1fch_A          223 LGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGA  300 (368)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCC
Confidence            7777777777777777777766652 3356677777777777777777777777766542 3345667777777777777


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          275 CEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       275 ~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      +++|...|+++.+..  |+..            .......+....+|..+..+|...|+.++|..++.
T Consensus       301 ~~~A~~~~~~al~~~--~~~~------------~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  354 (368)
T 1fch_A          301 HREAVEHFLEALNMQ--RKSR------------GPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADA  354 (368)
T ss_dssp             HHHHHHHHHHHHHHH--HTC------------------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHT
T ss_pred             HHHHHHHHHHHHHhC--CCCC------------CccccccchhhHHHHHHHHHHHHhCChHhHHHhHH
Confidence            777777777765421  1000            00000012247889999999999999999999875

>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=99.70  E-value=1.5e-14  Score=133.03  Aligned_cols=261  Identities=10%  Similarity=-0.029  Sum_probs=202.1

Q ss_pred             CcCcchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHh-----------HHHH
Q 045379           59 FPVLSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMS-----------CVSI  123 (352)
Q Consensus        59 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~-----------~~~~  123 (352)
                      .|.....+..+...|...|++++|...|+++    |.+...|..+..++...|+.+.+...+...           .+|.
T Consensus        56 ~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  135 (450)
T 2y4t_A           56 DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQS  135 (450)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHH
T ss_pred             CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHH
Confidence            3444567889999999999999999988865    356788899999998888877766665544           2444


Q ss_pred             HH------------HHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH
Q 045379          124 LL------------IEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVV  191 (352)
Q Consensus       124 ~l------------i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~  191 (352)
                      .+            ...+.+.|++++|.+.|+++.+... .+..++..+..++...|++++|.+.|+++.+.. +.+..+
T Consensus       136 ~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~  213 (450)
T 2y4t_A          136 QLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCV-WDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEA  213 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHH
Confidence            44            4458899999999999999987543 477889999999999999999999999988753 456789


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHH------------HHHHHhcCCHHHHHHHHHHHHhCCCCCC-
Q 045379          192 YNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLM------------INLYGKASKSFMALKLFNEMRSHKCKPN-  258 (352)
Q Consensus       192 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l------------i~~~~~~g~~~~a~~l~~~m~~~g~~p~-  258 (352)
                      +..+...|...|++++|...|+++.+.. +.+...+..+            ...|...|++++|...|+++.+.  .|+ 
T Consensus       214 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~  290 (450)
T 2y4t_A          214 FYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSI  290 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcc
Confidence            9999999999999999999999998763 3345555554            78899999999999999999874  344 


Q ss_pred             ----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHH
Q 045379          259 ----ICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR----------LISRMHMGCEPDRASYNIM  324 (352)
Q Consensus       259 ----~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~l  324 (352)
                          ...+..+...+.+.|++++|...++++.+.. ..+...+..+..+|.          .++....-.+-+...+..+
T Consensus       291 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l  369 (450)
T 2y4t_A          291 AEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGL  369 (450)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHH
Confidence                4478888999999999999999999987652 235677877777776          5555522223356666666


Q ss_pred             H
Q 045379          325 V  325 (352)
Q Consensus       325 i  325 (352)
                      .
T Consensus       370 ~  370 (450)
T 2y4t_A          370 E  370 (450)
T ss_dssp             H
T ss_pred             H
Confidence            5

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

Probab=99.69  E-value=2.1e-15  Score=135.11  Aligned_cols=267  Identities=11%  Similarity=-0.043  Sum_probs=150.3

Q ss_pred             CcchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHH
Q 045379           61 VLSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEA  128 (352)
Q Consensus        61 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~  128 (352)
                      .....+..+...+.+.|++++|...|++.    |.+...|..+..++...|+.+.+...+....        +|..+...
T Consensus        63 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           63 KDWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TTCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            33446788899999999999999999865    3456666666666666555554444443322        56666666


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCC---------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHH
Q 045379          129 YGQKSLHKKAEFTYLELLDSRCI---------PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLP-PSAVVYNSYIDG  198 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~~---------p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~  198 (352)
                      |.+.|++++|.+.|+++.+....         .....+..+...+...|++++|...++++.+..-. ++..++..+...
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            66666666666666666542210         01122233455555666666666666666554211 145566666666


Q ss_pred             HHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 045379          199 LLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEA  278 (352)
Q Consensus       199 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  278 (352)
                      |...|++++|...|++..+.. +.+..+|+.+..+|...|++++|+..|++..+.. +.+..++..+...|.+.|++++|
T Consensus       223 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHH
Confidence            666666666666666655542 2345566666666666666666666666655432 22355566666666666666666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          279 EEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       279 ~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ...|+++.+..  |+...-.           -......+...|..+..++...|+.+.+.+...
T Consensus       301 ~~~~~~al~~~--~~~~~~~-----------~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  351 (365)
T 4eqf_A          301 VSNFLTALSLQ--RKSRNQQ-----------QVPHPAISGNIWAALRIALSLMDQPELFQAANL  351 (365)
T ss_dssp             HHHHHHHHHHH--HCC-----------------------CHHHHHHHHHHHHHTCHHHHHHHHT
T ss_pred             HHHHHHHHHhC--cccCCCc-----------ccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            66666654321  0000000           000001246789999999999999999988864

>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=99.67  E-value=1.2e-14  Score=127.55  Aligned_cols=262  Identities=9%  Similarity=-0.028  Sum_probs=155.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHc
Q 045379           64 PTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQ  131 (352)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~  131 (352)
                      ..+..+...+...|++++|...|+++    |.+...|..+..++...++.+.+...+....        +|..+...+..
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~  101 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN  101 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHH
Confidence            35667888899999999999999875    3455566666666665555544444433322        55666666666


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHH--------------HH-HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 045379          132 KSLHKKAEFTYLELLDSRCIPTEDTYALL--------------LK-AYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYI  196 (352)
Q Consensus       132 ~g~~~~a~~l~~~m~~~~~~p~~~~~~~l--------------i~-~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li  196 (352)
                      .|++++|.+.+++..+.... +...+..+              .. .+...|++++|...++++.+.. +.+...+..+.
T Consensus       102 ~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la  179 (327)
T 3cv0_A          102 EHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLG  179 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            66666666666666654321 11111111              11 2445566666666666665542 23456666666


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 045379          197 DGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCE  276 (352)
Q Consensus       197 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~  276 (352)
                      ..|...|++++|...+++..+.. +.+..++..+...+...|++++|.+.|++..+.. +.+..++..+...|.+.|+++
T Consensus       180 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~  257 (327)
T 3cv0_A          180 VLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYD  257 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHH
Confidence            66666666666666666665542 2345566666666666666666666666665432 234556666666666666666


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          277 EAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       277 ~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      +|.+.++++.+.........-             ......+...+..+..++.+.|+.++|.+++.
T Consensus       258 ~A~~~~~~a~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  310 (327)
T 3cv0_A          258 LAAKQLVRAIYMQVGGTTPTG-------------EASREATRSMWDFFRMLLNVMNRPDLVELTYA  310 (327)
T ss_dssp             HHHHHHHHHHHHHTTSCC------------------CCTHHHHHHHHHHHHHHHTTCHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCCccccccc-------------cchhhcCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            666666665532100000000             00001147788999999999999999999875

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

Probab=99.67  E-value=9.3e-15  Score=136.55  Aligned_cols=274  Identities=12%  Similarity=0.013  Sum_probs=218.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC---CchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccC
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP---PTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKS  133 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g  133 (352)
                      .+..+...+.+.|++++|...|+++.   |+...|..+..++...|+.+.+...+....        +|..+..++.+.|
T Consensus         8 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g   87 (514)
T 2gw1_A            8 ALKDKGNQFFRNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEGLG   87 (514)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHh
Confidence            45677888899999999999998764   788999999999999998877777666544        8999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCC--------------------------------------------------------------
Q 045379          134 LHKKAEFTYLELLDSRCI--------------------------------------------------------------  151 (352)
Q Consensus       134 ~~~~a~~l~~~m~~~~~~--------------------------------------------------------------  151 (352)
                      ++++|.+.|+++.+.+..                                                              
T Consensus        88 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (514)
T 2gw1_A           88 KFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASF  167 (514)
T ss_dssp             CHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHH
Confidence            999999999998765421                                                              


Q ss_pred             ---------------C-CHHHHHHHHHHHHH---cCCHHHHHHHHHHHHH-----CCC--------CCCHHHHHHHHHHH
Q 045379          152 ---------------P-TEDTYALLLKAYCM---SGLLEKAEAVFREMRK-----YGL--------PPSAVVYNSYIDGL  199 (352)
Q Consensus       152 ---------------p-~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~-----~g~--------~~~~~~~~~li~~~  199 (352)
                                     | +...+......+..   .|++++|...++++.+     ..-        +.+..++..+...+
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  247 (514)
T 2gw1_A          168 FGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFK  247 (514)
T ss_dssp             HTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHH
Confidence                           0 13333333343443   8999999999999987     311        22356788899999


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  279 (352)
                      ...|++++|...|++..+..  |+..++..+...|...|++++|...+++..... +.+...+..+...|...|++++|.
T Consensus       248 ~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  324 (514)
T 2gw1_A          248 FLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAG  324 (514)
T ss_dssp             HHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHH
T ss_pred             HHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHH
Confidence            99999999999999998874  448889999999999999999999999998764 446778999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          280 EIFEQLQGAGIEPDVYAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       280 ~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ..++++.+.... +...+..+...+.          .++.+....+.+...+..+...|.+.|++++|.+.|.
T Consensus       325 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  396 (514)
T 2gw1_A          325 KDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYD  396 (514)
T ss_dssp             HHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            999999876422 3455555554443          6666622334567889999999999999999999986

>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=99.64  E-value=2.9e-16  Score=141.11  Aligned_cols=217  Identities=9%  Similarity=0.007  Sum_probs=56.0

Q ss_pred             HhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhH---HHHHHHHHHHccCCHHHHHHHHHHHHhCCC
Q 045379           74 QREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSC---VSILLIEAYGQKSLHKKAEFTYLELLDSRC  150 (352)
Q Consensus        74 ~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~l~~~m~~~~~  150 (352)
                      .+.|++++|.+.+++++ ++.+|..+..++.+.++.+.+.+.+....   +|..++.++...|++++|.+.++..++.  
T Consensus        14 ~~~~~ld~A~~fae~~~-~~~vWs~La~A~l~~g~~~eAIdsfika~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--   90 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCN-EPAVWSQLAKAQLQKGMVKEAIDSYIKADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--   90 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCC-ChHHHHHHHHHHHHcCCHHHHHHHHHcCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--
Confidence            47788999999999884 33466555555555444444444333222   4444444444445555555444333331  


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 045379          151 IPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLM  230 (352)
Q Consensus       151 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  230 (352)
                      .+++.+.+.++.+|.+.|+++++.++++       .|+..+|+.+...|...|++++|...|..+         ..|..+
T Consensus        91 ~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~L  154 (449)
T 1b89_A           91 ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRL  154 (449)
T ss_dssp             ------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHH
T ss_pred             CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHH
Confidence            2334444444455555555544444442       133344455555555555555555555443         134445


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH
Q 045379          231 INLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRM  310 (352)
Q Consensus       231 i~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m  310 (352)
                      ..++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|.....                           
T Consensus       155 A~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l---------------------------  201 (449)
T 1b89_A          155 ASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGL---------------------------  201 (449)
T ss_dssp             HHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTT---------------------------
T ss_pred             HHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHH---------------------------
Confidence            55555555555555544444      144445555555555555544422211                           


Q ss_pred             hcCCCCCHHHHHHHHHHHHHcCCcchhHHHHHHH
Q 045379          311 HMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVE  344 (352)
Q Consensus       311 ~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~~~  344 (352)
                        .+..++.....++..|.+.|++++|..+|...
T Consensus       202 --~L~~~ad~l~~lv~~Yek~G~~eEai~lLe~a  233 (449)
T 1b89_A          202 --HIVVHADELEELINYYQDRGYFEELITMLEAA  233 (449)
T ss_dssp             --TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             --HHHhCHhhHHHHHHHHHHCCCHHHHHHHHHHH
Confidence              12234444556788888888888888887633

>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=99.64  E-value=2.4e-15  Score=135.22  Aligned_cols=250  Identities=12%  Similarity=0.076  Sum_probs=132.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhH-------HHHHHHHHHHccCCHH
Q 045379           64 PTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSC-------VSILLIEAYGQKSLHK  136 (352)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-------~~~~li~~~~~~g~~~  136 (352)
                      .++..|+.++.+.|++++|++.|.+. +|...|..+++++...|+.+.+...+....       +.+.++.+|.+.|+++
T Consensus        33 ~vWs~La~A~l~~g~~~eAIdsfika-~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~~~~~~i~~~Li~~Y~Klg~l~  111 (449)
T 1b89_A           33 AVWSQLAKAQLQKGMVKEAIDSYIKA-DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLA  111 (449)
T ss_dssp             -----------------------------------------------------------------------------CHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHcC-CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHhCCHH
Confidence            38889999999999999999999876 677799999999999998888777665443       6888999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 045379          137 KAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMK  216 (352)
Q Consensus       137 ~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  216 (352)
                      ++.++++       .|+..+|..+...|...|++++|...|..+         ..|..++.++.+.|++++|.+.+.+..
T Consensus       112 e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA~  175 (449)
T 1b89_A          112 ELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN  175 (449)
T ss_dssp             HHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHHT
T ss_pred             HHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHcC
Confidence            9998884       278889999999999999999999999986         489999999999999999999999982


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 045379          217 RDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYA  296 (352)
Q Consensus       217 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~  296 (352)
                            ++.+|..++.+|...|+++.|......     +...+.-...++..|.+.|++++|..+++...... .-....
T Consensus       176 ------~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~  243 (449)
T 1b89_A          176 ------STRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGM  243 (449)
T ss_dssp             ------CHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHH
T ss_pred             ------CchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHH
Confidence                  799999999999999999999665554     23344556679999999999999999999988554 556677


Q ss_pred             HHHHHHHHH------HHHHH-----hcCCCC------CHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          297 YNALMEAYR------LISRM-----HMGCEP------DRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       297 ~~~li~a~~------~~~~m-----~~~~~p------~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      |+-+-.+|+      +.+.+     .-+++|      +...|..++-.|.+.|+++.|.....
T Consensus       244 ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~tm~  306 (449)
T 1b89_A          244 FTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM  306 (449)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHH
Confidence            777777776      22222     222333      45668888899999999999887643

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

Probab=99.63  E-value=5.5e-14  Score=125.82  Aligned_cols=239  Identities=10%  Similarity=-0.046  Sum_probs=168.9

Q ss_pred             CCHHHHHHHhcCCCC----chhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCCHHHHHHHHHH
Q 045379           77 VDSNTIWDAFDSLPP----THATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSLHKKAEFTYLE  144 (352)
Q Consensus        77 g~~~~A~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~~~a~~l~~~  144 (352)
                      |....+...+...+.    +...|..+...+...|+.+.+...++...        +|..+...|.+.|++++|.+.|++
T Consensus        45 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~  124 (365)
T 4eqf_A           45 VTVSASEKGYYFHTENPFKDWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQR  124 (365)
T ss_dssp             --------CCCCCSSCTTTTCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhhHHHHHhhhcccCCcccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            444555555554443    34458888888888887776666665543        888888888888888889888888


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC---------CCHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 045379          145 LLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLP---------PSAVVYNSYIDGLLKGGNPQKAVEIFQRM  215 (352)
Q Consensus       145 m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~---------~~~~~~~~li~~~~~~g~~~~a~~~~~~m  215 (352)
                      ..+... .+..++..+..++...|++++|...++++.+..-.         .....+..+...+.+.|++++|...|+++
T Consensus       125 al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  203 (365)
T 4eqf_A          125 CLELQP-NNLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEA  203 (365)
T ss_dssp             HHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHH
T ss_pred             HHhcCC-CCHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            887542 35778888888888888888888888888764210         11234455677888888888888888888


Q ss_pred             HHcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 045379          216 KRDCCQ-PSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDV  294 (352)
Q Consensus       216 ~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~  294 (352)
                      .+..-. ++..++..+...|...|++++|++.|++..+.. +.+..+|..+...|...|++++|...|+++.+.  .   
T Consensus       204 l~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~---  277 (365)
T 4eqf_A          204 AHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEI--Q---  277 (365)
T ss_dssp             HHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C---
T ss_pred             HHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--C---
Confidence            776321 157888888888888889999988888887653 346778888888888889999888888887753  1   


Q ss_pred             HHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          295 YAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       295 ~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                                          +.+...+..+..+|.+.|++++|.+.|.
T Consensus       278 --------------------p~~~~~~~~l~~~~~~~g~~~~A~~~~~  305 (365)
T 4eqf_A          278 --------------------PGFIRSRYNLGISCINLGAYREAVSNFL  305 (365)
T ss_dssp             --------------------TTCHHHHHHHHHHHHHHTCCHHHHHHHH
T ss_pred             --------------------CCchHHHHHHHHHHHHCCCHHHHHHHHH
Confidence                                3367888999999999999999999986

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

Probab=99.63  E-value=2.5e-13  Score=118.04  Aligned_cols=188  Identities=14%  Similarity=0.095  Sum_probs=153.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIP-TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      ++..+...+...|+.++|++.++++...+..| +...+..+...+...|++++|++.+++      +.+...+..+...|
T Consensus        67 a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~  140 (291)
T 3mkr_A           67 AVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQIL  140 (291)
T ss_dssp             HHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHH
Confidence            66778888999999999999999999877555 556777777999999999999999987      56788999999999


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTETY---TLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCE  276 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~---~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~  276 (352)
                      .+.|++++|.+.|+++.+..  |+....   ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.|+++
T Consensus       141 ~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~  217 (291)
T 3mkr_A          141 LKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWE  217 (291)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHH
Confidence            99999999999999998874  443211   22344455669999999999999876 3668889999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcch-hHHHHH
Q 045379          277 EAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEG-KCSYSL  342 (352)
Q Consensus       277 ~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~-A~~~~~  342 (352)
                      +|...|++..+.  .|                       -+..++..++..+...|+.++ +.+++.
T Consensus       218 eA~~~l~~al~~--~p-----------------------~~~~~l~~l~~~~~~~g~~~eaa~~~~~  259 (291)
T 3mkr_A          218 AAEGVLQEALDK--DS-----------------------GHPETLINLVVLSQHLGKPPEVTNRYLS  259 (291)
T ss_dssp             HHHHHHHHHHHH--CT-----------------------TCHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CC-----------------------CCHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            999999998764  22                       367777888888888888866 455653

>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=99.61  E-value=2.1e-13  Score=119.76  Aligned_cols=226  Identities=15%  Similarity=0.095  Sum_probs=189.4

Q ss_pred             cCcchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHh-hccCcchhhHHhH--------HHHHHH
Q 045379           60 PVLSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLR-LNKKWDPIVLMSC--------VSILLI  126 (352)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~-~~~~~~~~~~~~~--------~~~~li  126 (352)
                      |........++..+...|++++|...|+++    |.+...|..+...+...+ +.+.+...+....        +|..+.
T Consensus        53 p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~  132 (330)
T 3hym_B           53 PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYG  132 (330)
T ss_dssp             TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHH
T ss_pred             CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHH
Confidence            444456777888889999999999888765    357788888888888888 6665555554433        899999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHH
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQ  206 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  206 (352)
                      ..+...|++++|.+.|++..+... .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...|...|+++
T Consensus       133 ~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~  210 (330)
T 3hym_B          133 HSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWK  210 (330)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHH
Confidence            999999999999999999987653 245677789999999999999999999998874 556789999999999999999


Q ss_pred             HHHHHHHHHHHcC--------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 045379          207 KAVEIFQRMKRDC--------CQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEA  278 (352)
Q Consensus       207 ~a~~~~~~m~~~~--------~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  278 (352)
                      +|...+++..+..        .+....++..+...|...|++++|...+++..+.. +.+...+..+...|.+.|++++|
T Consensus       211 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A  289 (330)
T 3hym_B          211 TAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENA  289 (330)
T ss_dssp             HHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHH
Confidence            9999999987642        13446789999999999999999999999998753 34677899999999999999999


Q ss_pred             HHHHHHHHHC
Q 045379          279 EEIFEQLQGA  288 (352)
Q Consensus       279 ~~l~~~m~~~  288 (352)
                      .+.+++..+.
T Consensus       290 ~~~~~~al~~  299 (330)
T 3hym_B          290 VDYFHTALGL  299 (330)
T ss_dssp             HHHHHTTTTT
T ss_pred             HHHHHHHHcc
Confidence            9999998754

>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=99.61  E-value=1.5e-13  Score=129.18  Aligned_cols=217  Identities=12%  Similarity=0.006  Sum_probs=168.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      +|..+...+...|++++|.+.|.+..+..  |+..++..+...+...|++++|...+++..+.. +.+..++..+...|.
T Consensus       245 ~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  321 (537)
T 3fp2_A          245 ALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYF  321 (537)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHH
Confidence            45566677888889999999999888754  567788888888889999999999999888764 456788899999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEE  280 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~  280 (352)
                      ..|++++|...|++..+.. +.+...+..+...|...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+
T Consensus       322 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  399 (537)
T 3fp2_A          322 ILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIK  399 (537)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHH
Confidence            9999999999999988764 3356788889999999999999999999987753 4456788889999999999999999


Q ss_pred             HHHHHHHCC-----CCCCHH-------HH-------------HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcc
Q 045379          281 IFEQLQGAG-----IEPDVY-------AY-------------NALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHE  335 (352)
Q Consensus       281 l~~~m~~~~-----~~p~~~-------~~-------------~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~  335 (352)
                      .|+++.+..     ......       .+             ...-.|...++......+.+...+..+...|.+.|+++
T Consensus       400 ~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~  479 (537)
T 3fp2_A          400 QYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKID  479 (537)
T ss_dssp             HHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHH
Confidence            999886531     111111       11             11223333556552233567889999999999999999


Q ss_pred             hhHHHHH
Q 045379          336 GKCSYSL  342 (352)
Q Consensus       336 ~A~~~~~  342 (352)
                      +|.+.|.
T Consensus       480 ~A~~~~~  486 (537)
T 3fp2_A          480 EAIELFE  486 (537)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999986

>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=99.59  E-value=1.4e-13  Score=122.97  Aligned_cols=242  Identities=13%  Similarity=-0.001  Sum_probs=124.6

Q ss_pred             HHhcCCHHHHHH-HhcCCC---C-----chhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCCH
Q 045379           73 VQREVDSNTIWD-AFDSLP---P-----THATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSLH  135 (352)
Q Consensus        73 ~~~~g~~~~A~~-~~~~~~---~-----~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~  135 (352)
                      +.-.|++++|.. .|++..   +     +...|..+...+...|+.+.+...+....        +|..+...+.+.|++
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCH
Confidence            445578888887 666432   2     23445555555555554444444333322        555555555555555


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH---------------HHHHHH
Q 045379          136 KKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNS---------------YIDGLL  200 (352)
Q Consensus       136 ~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~---------------li~~~~  200 (352)
                      ++|.+.|++..+... .+..++..+..++...|++++|.+.++++.+... .+...+..               .+..+.
T Consensus       115 ~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (368)
T 1fch_A          115 LLAISALRRCLELKP-DNQTALMALAVSFTNESLQRQACEILRDWLRYTP-AYAHLVTPAEEGAGGAGLGPSKRILGSLL  192 (368)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTST-TTGGGCC---------------CTTHHHH
T ss_pred             HHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHhhhhcccHHHHHHHHHh
Confidence            555555555554332 2445555555555555555555555555554321 11111110               122222


Q ss_pred             cCCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQ-PSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  279 (352)
                      ..|++++|...|+++.+.... ++..++..+...|...|++++|+..|++..... +.+..++..+...|...|++++|.
T Consensus       193 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~  271 (368)
T 1fch_A          193 SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAV  271 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHH
Confidence            555555555555555544211 034555555555555566666665555554431 223445555555555556666665


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          280 EIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       280 ~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ..|+++.+.                         .+.+...+..+..+|.+.|++++|.+.|.
T Consensus       272 ~~~~~al~~-------------------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  309 (368)
T 1fch_A          272 AAYRRALEL-------------------------QPGYIRSRYNLGISCINLGAHREAVEHFL  309 (368)
T ss_dssp             HHHHHHHHH-------------------------CTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHh-------------------------CCCcHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            555555432                         14467889999999999999999999986

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

Probab=99.59  E-value=6.4e-13  Score=115.46  Aligned_cols=221  Identities=14%  Similarity=0.048  Sum_probs=173.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC-CchhhHHHHHHHHHHHhhccCcchhhHHh----------HHHHHHHHHHHccC
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP-PTHATWDDLINVSVQLRLNKKWDPIVLMS----------CVSILLIEAYGQKS  133 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~----------~~~~~li~~~~~~g  133 (352)
                      ....+...|...|+++.|...++... ++..++..+...+...++.+.+.+.++..          ..+..+...+.+.|
T Consensus        36 ~~~~l~r~yi~~g~~~~al~~~~~~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g  115 (291)
T 3mkr_A           36 RDVFLYRAYLAQRKYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQ  115 (291)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHSCTTSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHhcccCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCC
Confidence            44567889999999999999887754 45556666666666555544444433321          16777789999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH---HHHHHHHHcCCCHHHHHH
Q 045379          134 LHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVY---NSYIDGLLKGGNPQKAVE  210 (352)
Q Consensus       134 ~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~---~~li~~~~~~g~~~~a~~  210 (352)
                      ++++|++.+++      +.+...+..+...+.+.|++++|.+.++++.+..  |+....   ...+..+...|++++|..
T Consensus       116 ~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~  187 (291)
T 3mkr_A          116 NPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYY  187 (291)
T ss_dssp             CHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHH
T ss_pred             CHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHH
Confidence            99999999987      4688899999999999999999999999998874  443221   234455566799999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHCC
Q 045379          211 IFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEE-AEEIFEQLQGAG  289 (352)
Q Consensus       211 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~-a~~l~~~m~~~~  289 (352)
                      +|+++.+. .+.+...++.+..++.+.|++++|+..|++..+.. +-+..++..++..+...|+.++ +.++++++.+. 
T Consensus       188 ~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~-  264 (291)
T 3mkr_A          188 IFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA-  264 (291)
T ss_dssp             HHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-
Confidence            99999987 46789999999999999999999999999988753 4477889999999999999876 67899988764 


Q ss_pred             CCCCHHHH
Q 045379          290 IEPDVYAY  297 (352)
Q Consensus       290 ~~p~~~~~  297 (352)
                       .|+....
T Consensus       265 -~P~~~~~  271 (291)
T 3mkr_A          265 -HRSHPFI  271 (291)
T ss_dssp             -CTTCHHH
T ss_pred             -CCCChHH
Confidence             4544333

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

Probab=99.59  E-value=4.1e-13  Score=111.46  Aligned_cols=192  Identities=12%  Similarity=-0.009  Sum_probs=158.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .+..+...+.+.|++++|...|++..+..+ .+...+..+..++.+.|++++|...+++..+.. +.+...+..+...+.
T Consensus         7 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~   84 (217)
T 2pl2_A            7 NPLRLGVQLYALGRYDAALTLFERALKENP-QDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAYV   84 (217)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTSS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            456677888999999999999999988654 377899999999999999999999999998864 456788899999999


Q ss_pred             cC-----------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 045379          201 KG-----------GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAF  269 (352)
Q Consensus       201 ~~-----------g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~  269 (352)
                      ..           |++++|...|++..+.. +-+...+..+-.++...|++++|+..|++..+..  .+...+..+..+|
T Consensus        85 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~  161 (217)
T 2pl2_A           85 ALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELY  161 (217)
T ss_dssp             HHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHH
T ss_pred             HhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHH
Confidence            99           99999999999998863 3467889999999999999999999999998876  7888999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          270 AREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       270 ~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ...|++++|...|++..+.  .                       +.+...+..+..++.+.|++++|.+.|.
T Consensus       162 ~~~g~~~~A~~~~~~al~~--~-----------------------P~~~~~~~~la~~~~~~g~~~~A~~~~~  209 (217)
T 2pl2_A          162 LSMGRLDEALAQYAKALEQ--A-----------------------PKDLDLRVRYASALLLKGKAEEAARAAA  209 (217)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--S-----------------------TTCHHHHHHHHHHHTC------------
T ss_pred             HHcCCHHHHHHHHHHHHHh--C-----------------------CCChHHHHHHHHHHHHccCHHHHHHHHH
Confidence            9999999999999998864  2                       3377888899999999999999998875

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

Probab=99.57  E-value=7e-13  Score=123.77  Aligned_cols=217  Identities=9%  Similarity=-0.088  Sum_probs=156.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      +|..+...+...|++++|.+.|+++.+..  |+...+..+..++...|++++|...++++.+.. +.+...+..+...|.
T Consensus       239 ~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  315 (514)
T 2gw1_A          239 SLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNF  315 (514)
T ss_dssp             HHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHH
Confidence            66677777888888888888888877654  336777778888888888888888888877653 345677888888888


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEE  280 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~  280 (352)
                      ..|++++|...|++..+.. +.+..++..+...|...|++++|...++++.+.. +.+..++..+...|...|++++|..
T Consensus       316 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  393 (514)
T 2gw1_A          316 ILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALK  393 (514)
T ss_dssp             HTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHH
Confidence            8888888888888887753 3356778888888888888888888888887642 3355678888888888888888888


Q ss_pred             HHHHHHHCC-CCCC----HHHHHHHHHHHH-------------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          281 IFEQLQGAG-IEPD----VYAYNALMEAYR-------------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       281 l~~~m~~~~-~~p~----~~~~~~li~a~~-------------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .++++.+.. -.++    ...+..+...+.             .++......+.+...+..+...|.+.|++++|.+.|.
T Consensus       394 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  473 (514)
T 2gw1_A          394 QYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFE  473 (514)
T ss_dssp             HHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            888876531 1122    223333333321             4444422224567788888888999999999988875

>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=99.56  E-value=2.5e-12  Score=108.61  Aligned_cols=194  Identities=15%  Similarity=0.111  Sum_probs=152.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|..+...+...|++++|.+.|+++.+... .+...+..+...+...|++++|.+.++++.+.. +.+...+..+...|.
T Consensus        39 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  116 (252)
T 2ho1_A           39 AYIQLGLGYLQRGNTEQAKVPLRKALEIDP-SSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLY  116 (252)
T ss_dssp             HHHHHHHHHHHTTCTGGGHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCC-ChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHH
Confidence            567777788888888999988888876542 367788888888888999999999888887763 346778888888888


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQP-STETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  279 (352)
                      ..|++++|...|+++.+.+..| +...+..+...+...|++++|.+.|++..+.. +.+...+..+...|...|++++|.
T Consensus       117 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~  195 (252)
T 2ho1_A          117 EQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPAR  195 (252)
T ss_dssp             HTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHH
Confidence            8999999999998887733344 45677888888888899999999888887653 335777888888888899999998


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          280 EIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       280 ~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ..++++.+..                         +.+...+..+...+...|+.++|.+++.
T Consensus       196 ~~~~~~~~~~-------------------------~~~~~~~~~~~~~~~~~g~~~~A~~~~~  233 (252)
T 2ho1_A          196 QYYDLFAQGG-------------------------GQNARSLLLGIRLAKVFEDRDTAASYGL  233 (252)
T ss_dssp             HHHHHHHTTS-------------------------CCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhC-------------------------cCcHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            8888877531                         2356667777888888888888888875

>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=99.55  E-value=1.3e-12  Score=122.82  Aligned_cols=274  Identities=12%  Similarity=0.046  Sum_probs=194.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHc
Q 045379           64 PTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQ  131 (352)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~  131 (352)
                      ..+..+...+.+.|++++|...|++.    |.++..|..+..++...|+.+.+...+....        +|..+...+..
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~  105 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASANES  105 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHH
Confidence            35577788888888888888888765    3577788888888888887776666655443        77888888888


Q ss_pred             cCCHHHHHHHHHHHHhCC------------------------------------CCCCHHHHHH----------------
Q 045379          132 KSLHKKAEFTYLELLDSR------------------------------------CIPTEDTYAL----------------  159 (352)
Q Consensus       132 ~g~~~~a~~l~~~m~~~~------------------------------------~~p~~~~~~~----------------  159 (352)
                      .|++++|.+.|+.+....                                    ..|+......                
T Consensus       106 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  185 (537)
T 3fp2_A          106 LGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNT  185 (537)
T ss_dssp             HTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCC
T ss_pred             cCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhh
Confidence            888888888885332110                                    0111111110                


Q ss_pred             ----------HHHHHH------------HcCCHHHHHHHHHHHHHCCCCCC-------HHHHHHHHHHHHcCCCHHHHHH
Q 045379          160 ----------LLKAYC------------MSGLLEKAEAVFREMRKYGLPPS-------AVVYNSYIDGLLKGGNPQKAVE  210 (352)
Q Consensus       160 ----------li~~~~------------~~g~~~~a~~~~~~m~~~g~~~~-------~~~~~~li~~~~~~g~~~~a~~  210 (352)
                                +..++.            ..|++++|..+++++.+..- .+       ..++..+...+...|++++|..
T Consensus       186 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~  264 (537)
T 3fp2_A          186 SSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANT-VDDPLRENAALALCYTGIFHFLKNNLLDAQV  264 (537)
T ss_dssp             CCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--C-CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCC-CcchhhHHHHHHHHHHHHHHHhcccHHHHHH
Confidence                      111111            12467888888888876532 22       2356667778888899999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 045379          211 IFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGI  290 (352)
Q Consensus       211 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~  290 (352)
                      .|++..+.  .|+..++..+...+...|++++|.+.+++..+.. +.+..++..+...+...|++++|.+.++++.+...
T Consensus       265 ~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~  341 (537)
T 3fp2_A          265 LLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP  341 (537)
T ss_dssp             HHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Confidence            99998886  4667888888899999999999999999887653 34677888889999999999999999998876531


Q ss_pred             CCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          291 EPDVYAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       291 ~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                       .+...+..+...+.          .++......+.+...+..+...|...|++++|.+.|.
T Consensus       342 -~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  402 (537)
T 3fp2_A          342 -ENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYD  402 (537)
T ss_dssp             -TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             -CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHH
Confidence             23455555555554          5555522335567899999999999999999999986

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

Probab=99.54  E-value=3.6e-12  Score=105.28  Aligned_cols=210  Identities=14%  Similarity=-0.016  Sum_probs=169.0

Q ss_pred             cCcchhHHHHHHHHHhcCCHHHHHHHhcCCC---CchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHH
Q 045379           60 PVLSPTAQQILRFVQREVDSNTIWDAFDSLP---PTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHK  136 (352)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  136 (352)
                      |....++..+...|...|++++|...|++..   |+.                         ..+|..+...|...|+++
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~-------------------------~~~~~~l~~~~~~~~~~~   59 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKN-------------------------ELAWLVRAEIYQYLKVND   59 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-------------------------HHHHHHHHHHHHHTTCHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccc-------------------------hHHHHHHHHHHHHcCChH
Confidence            3344577888999999999999999887642   111                         115677778889999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHH
Q 045379          137 KAEFTYLELLDSRCIPTEDTYALLLKAYCMS-GLLEKAEAVFREMRKYGLPP-SAVVYNSYIDGLLKGGNPQKAVEIFQR  214 (352)
Q Consensus       137 ~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~  214 (352)
                      +|.+.|++..+... .+..++..+...+... |++++|...++++.+.+..| +...+..+...+...|++++|...|++
T Consensus        60 ~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  138 (225)
T 2vq2_A           60 KAQESFRQALSIKP-DSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKR  138 (225)
T ss_dssp             HHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC-CChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999987543 3677899999999999 99999999999998843333 367888999999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 045379          215 MKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDV  294 (352)
Q Consensus       215 m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~  294 (352)
                      ..+.. +.+...+..+...+...|++++|.+.+++..+.....+...+..+...+...|+.++|..+++.+.+.  .|+.
T Consensus       139 ~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~  215 (225)
T 2vq2_A          139 SLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYS  215 (225)
T ss_dssp             HHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCC
Confidence            88763 34688899999999999999999999999877532157778888888899999999999999998754  3544


Q ss_pred             HHHH
Q 045379          295 YAYN  298 (352)
Q Consensus       295 ~~~~  298 (352)
                      ..+.
T Consensus       216 ~~~~  219 (225)
T 2vq2_A          216 EELQ  219 (225)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4433

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

Probab=99.54  E-value=2.1e-11  Score=107.95  Aligned_cols=265  Identities=10%  Similarity=-0.027  Sum_probs=199.9

Q ss_pred             cCcchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH-----------HHHH
Q 045379           60 PVLSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC-----------VSIL  124 (352)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-----------~~~~  124 (352)
                      |.....+..+...|...|++++|...|++.    |.+...|..+..++...|+.+.+...+....           .+..
T Consensus        34 p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~  113 (359)
T 3ieg_A           34 PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQ  113 (359)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHH
Confidence            344557888999999999999999988765    3467788888888888887766555544321           3333


Q ss_pred             H------------HHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 045379          125 L------------IEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVY  192 (352)
Q Consensus       125 l------------i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~  192 (352)
                      +            ...+...|++++|.+.++++.+... .+...+..+...+...|++++|...+++..+.. +.+..++
T Consensus       114 l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  191 (359)
T 3ieg_A          114 LVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCV-WDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAF  191 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHH
Confidence            3            6788999999999999999987543 467889999999999999999999999998863 5678899


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHH------------HHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-H
Q 045379          193 NSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYT------------LMINLYGKASKSFMALKLFNEMRSHKCKPN-I  259 (352)
Q Consensus       193 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~------------~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~  259 (352)
                      ..+...|...|++++|...|++..+.. +.+...+.            .+...+.+.|++++|...+++..+..  |+ .
T Consensus       192 ~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~  268 (359)
T 3ieg_A          192 YKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVA  268 (359)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCch
Confidence            999999999999999999999988763 23344443            23667889999999999999988753  33 2


Q ss_pred             ----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHH
Q 045379          260 ----CTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR----------LISRMHMGCEPDRASYNIMV  325 (352)
Q Consensus       260 ----~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li  325 (352)
                          ..+..+...+.+.|++++|...+++..+.. ..+...+..+...+.          .++....-.+-+...+..+.
T Consensus       269 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~  347 (359)
T 3ieg_A          269 EYTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLE  347 (359)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHH
Confidence                235567788999999999999999998752 235666666666655          55555222234566666666


Q ss_pred             HHHHH
Q 045379          326 DAYGR  330 (352)
Q Consensus       326 ~a~~~  330 (352)
                      .+...
T Consensus       348 ~~~~~  352 (359)
T 3ieg_A          348 KAQRL  352 (359)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.53  E-value=1.6e-12  Score=109.82  Aligned_cols=209  Identities=10%  Similarity=-0.013  Sum_probs=141.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCC----HHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG--LPPS----AVVYNS  194 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~~~----~~~~~~  194 (352)
                      .|..+...+...|++++|.+.|++..+..  .+...+..+..++...|++++|...+++..+..  ..++    ..++..
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            67778888889999999999999988766  678888999999999999999999998887642  1122    578888


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 045379          195 YIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGL  274 (352)
Q Consensus       195 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~  274 (352)
                      +...|...|++++|...|++..+.  .|+.       ..+...|++++|...++++.... +.+...+..+...+...|+
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  154 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSD  154 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcC
Confidence            888999999999999999988874  2332       22334455555555555554431 1223345555555555555


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          275 CEEAEEIFEQLQGAGIEPDVYAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       275 ~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      +++|...+++..+.. ..+...+..+...+.          .++......+.+...+..+..+|.+.|++++|.+.|.
T Consensus       155 ~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          155 WPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            555555555554432 113344444443333          3333311124468889999999999999999999986

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

Probab=99.53  E-value=7.7e-13  Score=109.76  Aligned_cols=195  Identities=15%  Similarity=0.064  Sum_probs=152.6

Q ss_pred             CcchhHHHHHHHHHhcCCHHHHHHHhcCCC---C-chhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHH
Q 045379           61 VLSPTAQQILRFVQREVDSNTIWDAFDSLP---P-THATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHK  136 (352)
Q Consensus        61 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  136 (352)
                      .....+..+...+.+.|++++|...|++..   | +..                          .|..+...+.+.|+++
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~--------------------------a~~~lg~~~~~~g~~~   56 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPE--------------------------ALYWLARTQLKLGLVN   56 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHH--------------------------HHHHHHHHHHHTTCHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH--------------------------HHHHHHHHHHHcCCHH
Confidence            345577888899999999999999887542   2 222                          4566677788899999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc-----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 045379          137 KAEFTYLELLDSRCIPTEDTYALLLKAYCMS-----------GLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNP  205 (352)
Q Consensus       137 ~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  205 (352)
                      +|...|++..+..+ .+...+..+..++...           |++++|...+++..+.. +.+...+..+-..|...|++
T Consensus        57 ~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~  134 (217)
T 2pl2_A           57 PALENGKTLVARTP-RYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGER  134 (217)
T ss_dssp             HHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCh
Confidence            99999999987653 3677899999999999           99999999999998863 34678899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          206 QKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      ++|...|++..+..  .+...+..+..+|...|++++|+..|++..+.. +.+...+..+...+...|++++|...+++.
T Consensus       135 ~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          135 DKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            99999999999887  689999999999999999999999999998753 446778999999999999999999999876


Q ss_pred             H
Q 045379          286 Q  286 (352)
Q Consensus       286 ~  286 (352)
                      .
T Consensus       212 ~  212 (217)
T 2pl2_A          212 H  212 (217)
T ss_dssp             -
T ss_pred             h
Confidence            4

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

Probab=99.53  E-value=1e-11  Score=102.58  Aligned_cols=194  Identities=16%  Similarity=0.098  Sum_probs=164.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      +|..+...+...|++++|.+.|++..+... .+...+..+...+...|++++|.+.+++..+.. +.+..++..+...|.
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~   87 (225)
T 2vq2_A           10 IKTQLAMEYMRGQDYRQATASIEDALKSDP-KNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLC   87 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence            678888999999999999999999987543 367899999999999999999999999998763 456788999999999


Q ss_pred             cC-CCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 045379          201 KG-GNPQKAVEIFQRMKRDCCQPS-TETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEA  278 (352)
Q Consensus       201 ~~-g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  278 (352)
                      .. |++++|...++++.+.+..|+ ...+..+..++...|++++|+..++++.+.. +.+...+..+...+...|++++|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  166 (225)
T 2vq2_A           88 GRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDA  166 (225)
T ss_dssp             TTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHH
Confidence            99 999999999999988433343 6788999999999999999999999998753 34578899999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          279 EEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCE-PDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       279 ~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~-p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ...++++.+..                         + .+...+..+...+...|+.++|..++.
T Consensus       167 ~~~~~~~~~~~-------------------------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  206 (225)
T 2vq2_A          167 DYYFKKYQSRV-------------------------EVLQADDLLLGWKIAKALGNAQAAYEYEA  206 (225)
T ss_dssp             HHHHHHHHHHH-------------------------CSCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhC-------------------------CCCCHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            99999987531                         2 356667777778888888888888775

>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=99.52  E-value=1.2e-11  Score=104.43  Aligned_cols=200  Identities=14%  Similarity=-0.017  Sum_probs=166.2

Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHhcCCCC-chhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHH
Q 045379           63 SPTAQQILRFVQREVDSNTIWDAFDSLPP-THATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFT  141 (352)
Q Consensus        63 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l  141 (352)
                      ...+..+...|...|++++|...|++... ++.                       ...+|..+...|.+.|++++|.+.
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-----------------------~~~~~~~la~~~~~~~~~~~A~~~   93 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPS-----------------------SADAHAALAVVFQTEMEPKLADEE   93 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTT-----------------------CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-----------------------hHHHHHHHHHHHHHcCCHHHHHHH
Confidence            34667888888888999998888875420 000                       011567788889999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC
Q 045379          142 YLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPP-SAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC  220 (352)
Q Consensus       142 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  220 (352)
                      |++..+... .+...+..+...+...|++++|.+.++++.+.+..| +...+..+...|...|++++|...|++..+.. 
T Consensus        94 ~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-  171 (252)
T 2ho1_A           94 YRKALASDS-RNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-  171 (252)
T ss_dssp             HHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHCc-CcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-
Confidence            999987643 367899999999999999999999999998843344 56778889999999999999999999998864 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          221 QPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       221 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      +.+...+..+...|...|++++|...+++..+.. +.+...+..+...+...|++++|.+.++++.+.
T Consensus       172 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          172 RNQPSVALEMADLLYKEREYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            3468899999999999999999999999998753 456778899999999999999999999999875

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

Probab=99.51  E-value=2.8e-12  Score=107.48  Aligned_cols=193  Identities=12%  Similarity=0.079  Sum_probs=142.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|..+...+...|++++|...|++..+... .+...+..+...+...|++++|...+++..+.. +.+...+..+...|.
T Consensus        25 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~  102 (243)
T 2q7f_A           25 TGGQQMGRGSEFGDYEKAAEAFTKAIEENK-EDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYV  102 (243)
T ss_dssp             -----------------CCTTHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHH
Confidence            667777788888999999999998887543 367788888888999999999999998887763 346788888888899


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEE  280 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~  280 (352)
                      ..|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+.+.|++++|..
T Consensus       103 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  180 (243)
T 2q7f_A          103 VKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALS  180 (243)
T ss_dssp             HTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999888764 4467788888889999999999999998887653 3467788888888999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          281 IFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       281 l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .++++.+..                         +.+..++..+..+|.+.|++++|.+.|.
T Consensus       181 ~~~~~~~~~-------------------------~~~~~~~~~la~~~~~~~~~~~A~~~~~  217 (243)
T 2q7f_A          181 QFAAVTEQD-------------------------PGHADAFYNAGVTYAYKENREKALEMLD  217 (243)
T ss_dssp             HHHHHHHHC-------------------------TTCHHHHHHHHHHHHHTTCTTHHHHHHH
T ss_pred             HHHHHHHhC-------------------------cccHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            988876531                         2356677888888889999999988886

>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=99.51  E-value=9.5e-13  Score=115.34  Aligned_cols=224  Identities=13%  Similarity=0.030  Sum_probs=182.0

Q ss_pred             cCcchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHH--
Q 045379           60 PVLSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILL--  125 (352)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~l--  125 (352)
                      |.....+..+...|.+.|++++|...|++.    |.+...|..+...+...|+.+.+...+....        .+..+  
T Consensus        52 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~  131 (327)
T 3cv0_A           52 PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQ  131 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC------
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhH
Confidence            445567788999999999999999988865    3577888888888888887766655554433        22222  


Q ss_pred             ------------HH-HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 045379          126 ------------IE-AYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVY  192 (352)
Q Consensus       126 ------------i~-~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~  192 (352)
                                  .. .+...|++++|.+.++++.+... .+...+..+...+...|++++|.+.++++.+.. +.+..++
T Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  209 (327)
T 3cv0_A          132 ADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNP-NDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLW  209 (327)
T ss_dssp             --------------CCTTSHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHH
Confidence                        22 37788999999999999987653 378899999999999999999999999998763 4567889


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-----------CHHH
Q 045379          193 NSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKP-----------NICT  261 (352)
Q Consensus       193 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-----------~~~t  261 (352)
                      ..+...|...|++++|...|++..+.. +.+..++..+...|...|++++|.+.+++..+.....           +..+
T Consensus       210 ~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  288 (327)
T 3cv0_A          210 NKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSM  288 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHH
Confidence            999999999999999999999988764 4468899999999999999999999999987643111           4678


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          262 YTALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       262 ~~~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                      |..+..++.+.|+.++|..++++..
T Consensus       289 ~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          289 WDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            9999999999999999999987543

>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=99.51  E-value=7.9e-11  Score=100.87  Aligned_cols=215  Identities=15%  Similarity=0.005  Sum_probs=179.6

Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHhcCCC--CchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHc----cCCHH
Q 045379           63 SPTAQQILRFVQREVDSNTIWDAFDSLP--PTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQ----KSLHK  136 (352)
Q Consensus        63 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~  136 (352)
                      ...+..+...|...|++++|...|++..  .+..                          ++..+...|..    .++++
T Consensus         6 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~--------------------------a~~~lg~~~~~g~~~~~~~~   59 (273)
T 1ouv_A            6 PKELVGLGAKSYKEKDFTQAKKYFEKACDLKENS--------------------------GCFNLGVLYYQGQGVEKNLK   59 (273)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHH--------------------------HHHHHHHHHHHTSSSCCCHH
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHH--------------------------HHHHHHHHHHcCCCcCCCHH
Confidence            3466788888999999999999887542  1111                          45556677777    99999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCCHHHH
Q 045379          137 KAEFTYLELLDSRCIPTEDTYALLLKAYCM----SGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK----GGNPQKA  208 (352)
Q Consensus       137 ~a~~l~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a  208 (352)
                      +|.+.|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|
T Consensus        60 ~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A  133 (273)
T 1ouv_A           60 KAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKA  133 (273)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHH
Confidence            9999999999875   78889999999999    999999999999998875   67888999999999    9999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHH
Q 045379          209 VEIFQRMKRDCCQPSTETYTLMINLYGK----ASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR----EGLCEEAEE  280 (352)
Q Consensus       209 ~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~----~g~~~~a~~  280 (352)
                      ...|++..+.+   +...+..+-..|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|..
T Consensus       134 ~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~  207 (273)
T 1ouv_A          134 VEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALA  207 (273)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHH
T ss_pred             HHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            99999998875   67788888888888    899999999999998864   56788888999999    999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH----cCCcchhHHHHH
Q 045379          281 IFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGR----AGLHEGKCSYSL  342 (352)
Q Consensus       281 l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~----~g~~~~A~~~~~  342 (352)
                      .|++..+.+                           +...+..+...|.+    .|++++|.++|.
T Consensus       208 ~~~~a~~~~---------------------------~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~  246 (273)
T 1ouv_A          208 RYSKACELE---------------------------NGGGCFNLGAMQYNGEGVTRNEKQAIENFK  246 (273)
T ss_dssp             HHHHHHHTT---------------------------CHHHHHHHHHHHHTTSSSSCCSTTHHHHHH
T ss_pred             HHHHHHhCC---------------------------CHHHHHHHHHHHHcCCCcccCHHHHHHHHH
Confidence            999988653                           24456677777777    889999998886

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.47  E-value=9e-12  Score=105.15  Aligned_cols=213  Identities=11%  Similarity=-0.047  Sum_probs=145.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhcCCC---CchhhHHHHHHHHHHHhhccCcchhhHH---------------hHHHHHH
Q 045379           64 PTAQQILRFVQREVDSNTIWDAFDSLP---PTHATWDDLINVSVQLRLNKKWDPIVLM---------------SCVSILL  125 (352)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~~~~---------------~~~~~~l  125 (352)
                      ..+..+...+...|++++|...|++..   .+...|..+..++...++.+.+...+..               ..+|..+
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l   85 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARI   85 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHH
Confidence            356788888899999999988886542   4445555555555555444433332221               1245555


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 045379          126 IEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNP  205 (352)
Q Consensus       126 i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  205 (352)
                      ...+.+.|++++|.+.|++..+..  |+.       ..+...|++++|...++++.+.. +.+...+..+...+...|++
T Consensus        86 ~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  155 (258)
T 3uq3_A           86 GNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDW  155 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCH
Confidence            566666666666666666665532  332       23444555666666666655542 33456777888888899999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          206 QKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      ++|...|++..+.. +.+..++..+..+|...|++++|+..|++..+.. +.+...|..+...+.+.|++++|.+.+++.
T Consensus       156 ~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  233 (258)
T 3uq3_A          156 PNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAA  233 (258)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            99999999888764 3467888888889999999999999998887653 345778888888899999999999998887


Q ss_pred             HHC
Q 045379          286 QGA  288 (352)
Q Consensus       286 ~~~  288 (352)
                      .+.
T Consensus       234 ~~~  236 (258)
T 3uq3_A          234 RTK  236 (258)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            653

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

Probab=99.45  E-value=2.5e-11  Score=101.63  Aligned_cols=199  Identities=15%  Similarity=0.080  Sum_probs=151.0

Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHhcCCC-CchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHH
Q 045379           63 SPTAQQILRFVQREVDSNTIWDAFDSLP-PTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFT  141 (352)
Q Consensus        63 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l  141 (352)
                      +..+..+...+...|++++|...|++.. .++..                       ..++..+...+.+.|++++|.+.
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~-----------------------~~~~~~la~~~~~~~~~~~A~~~   79 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKED-----------------------AIPYINFANLLSSVNELERALAF   79 (243)
T ss_dssp             -------------------CCTTHHHHHTTCTTC-----------------------HHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCccc-----------------------HHHHHHHHHHHHHcCCHHHHHHH
Confidence            3466777888888899998877776542 11100                       11566777888999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCC
Q 045379          142 YLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQ  221 (352)
Q Consensus       142 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  221 (352)
                      |++..+... .+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+.+.|++++|...+++..+.. +
T Consensus        80 ~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~  156 (243)
T 2q7f_A           80 YDKALELDS-SAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-E  156 (243)
T ss_dssp             HHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHcCC-cchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-C
Confidence            999987543 367899999999999999999999999998864 4567889999999999999999999999998763 3


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          222 PSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       222 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      .+...+..+...+...|++++|.+.|++..+.. +.+..++..+...|...|++++|.+.++++.+.
T Consensus       157 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          157 NDTEARFQFGMCLANEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             TCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            478899999999999999999999999987753 446788999999999999999999999999865

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.44  E-value=4.4e-12  Score=110.25  Aligned_cols=222  Identities=12%  Similarity=0.074  Sum_probs=164.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------C-CC
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDS-------RCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY------G-LP  186 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~-------~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g-~~  186 (352)
                      ++..+...+...|++++|..+|+++.+.       ..+....++..+...+...|++++|...+++..+.      + .+
T Consensus        29 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  108 (311)
T 3nf1_A           29 TLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHP  108 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh
Confidence            7788889999999999999999998863       23334568889999999999999999999998764      2 23


Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc------CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------
Q 045379          187 PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD------CC-QPSTETYTLMINLYGKASKSFMALKLFNEMRSH------  253 (352)
Q Consensus       187 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~-~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~------  253 (352)
                      ....++..+...|...|++++|...|++..+.      +- +....++..+...|...|++++|++.+++..+.      
T Consensus       109 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~  188 (311)
T 3nf1_A          109 AVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLG  188 (311)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhC
Confidence            34677889999999999999999999988764      22 223567888999999999999999999998663      


Q ss_pred             CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHH-----------------HHH
Q 045379          254 KCKP-NICTYTALVNAFAREGLCEEAEEIFEQLQGA-------GIEPDVYAYNALMEAYR-----------------LIS  308 (352)
Q Consensus       254 g~~p-~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~-------~~~p~~~~~~~li~a~~-----------------~~~  308 (352)
                      +-.| ...++..+...|...|++++|.+.++++.+.       ...+...........+.                 .++
T Consensus       189 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  268 (311)
T 3nf1_A          189 PDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYK  268 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC----
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHh
Confidence            2122 3457888999999999999999999998753       12222222222222222                 111


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          309 RMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       309 ~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ......+.+..++..+..+|.+.|++++|.++|.
T Consensus       269 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  302 (311)
T 3nf1_A          269 ACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEE  302 (311)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             hcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            1111223456788999999999999999999986

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.42  E-value=8.5e-11  Score=94.31  Aligned_cols=164  Identities=19%  Similarity=0.159  Sum_probs=145.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      +|..+...|.+.|++++|++.|++..+..+ -+..++..+..++.+.|++++|...+....... +.+...+..+...+.
T Consensus         7 iy~~lG~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   84 (184)
T 3vtx_A            7 IYMDIGDKKRTKGDFDGAIRAYKKVLKADP-NNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSANF   84 (184)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHHH
Confidence            788899999999999999999999997653 367799999999999999999999999988764 446678888889999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEE  280 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~  280 (352)
                      ..++++.|...+.+..+.. +.+...+..+...|.+.|++++|++.|++..+.. +.+..+|..+...|.+.|++++|.+
T Consensus        85 ~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~  162 (184)
T 3vtx_A           85 MIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAVK  162 (184)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHHH
Confidence            9999999999999988764 4468889999999999999999999999998763 4567889999999999999999999


Q ss_pred             HHHHHHHC
Q 045379          281 IFEQLQGA  288 (352)
Q Consensus       281 l~~~m~~~  288 (352)
                      .|++..+.
T Consensus       163 ~~~~al~~  170 (184)
T 3vtx_A          163 YFKKALEK  170 (184)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHhC
Confidence            99998864

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.40  E-value=1e-11  Score=107.81  Aligned_cols=219  Identities=16%  Similarity=0.053  Sum_probs=164.0

Q ss_pred             ccCcCcCcchhHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCC
Q 045379           55 VDGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSL  134 (352)
Q Consensus        55 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  134 (352)
                      .+...|....++..+...|...|++++|...|++..          ..+...+..    .-.....++..+...|...|+
T Consensus        19 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~----------~~~~~~~~~----~~~~~~~~~~~la~~~~~~g~   84 (311)
T 3nf1_A           19 GGYEIPARLRTLHNLVIQYASQGRYEVAVPLCKQAL----------EDLEKTSGH----DHPDVATMLNILALVYRDQNK   84 (311)
T ss_dssp             SCTTSCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH----------HHHHHHHCS----SSHHHHHHHHHHHHHHHHTTC
T ss_pred             CCCcchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH----------HHHHHHcCC----CCHHHHHHHHHHHHHHHHCCC
Confidence            355667777788999999999999999999987642          111111100    011112277888889999999


Q ss_pred             HHHHHHHHHHHHhC------CC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------CC-CCCHHHHHHHHHHHH
Q 045379          135 HKKAEFTYLELLDS------RC-IPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY------GL-PPSAVVYNSYIDGLL  200 (352)
Q Consensus       135 ~~~a~~l~~~m~~~------~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g~-~~~~~~~~~li~~~~  200 (352)
                      +++|.+.+++..+.      +- +....++..+...+...|++++|...+++..+.      +. +.....+..+...|.
T Consensus        85 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~  164 (311)
T 3nf1_A           85 YKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQ  164 (311)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHH
Confidence            99999999988753      22 234558888999999999999999999988764      22 234566888899999


Q ss_pred             cCCCHHHHHHHHHHHHHc------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--------------------
Q 045379          201 KGGNPQKAVEIFQRMKRD------CCQP-STETYTLMINLYGKASKSFMALKLFNEMRSH--------------------  253 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~------~~~~-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~--------------------  253 (352)
                      ..|++++|...|++..+.      +-.| ...++..+...|...|++++|.+.+++..+.                    
T Consensus       165 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~  244 (311)
T 3nf1_A          165 NQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHA  244 (311)
T ss_dssp             TTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHH
Confidence            999999999999988764      2122 3457888999999999999999999888652                    


Q ss_pred             ----------------------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          254 ----------------------------KCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       254 ----------------------------g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                                                  ..+.+..++..+...|.+.|++++|.+.|++..+
T Consensus       245 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          245 EEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             HHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                                        1122345788899999999999999999998764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.38  E-value=2.9e-12  Score=109.51  Aligned_cols=162  Identities=10%  Similarity=-0.022  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      +|..+...|...|++++|.+.|++..+... .+..++..+..++...|++++|...++++.+.  .|+.......+..+.
T Consensus        79 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~  155 (275)
T 1xnf_A           79 VFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAE  155 (275)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcCc-cccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHH
Confidence            445555555666666666666666655322 23455566666666666666666666665553  233233333333444


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhcCCHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCK---PNICTYTALVNAFAREGLCEE  277 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~---p~~~t~~~li~~~~~~g~~~~  277 (352)
                      ..|++++|...+++..... +++...+ .++..+...++.++|.+.+++.......   .+..++..+...|.+.|++++
T Consensus       156 ~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  233 (275)
T 1xnf_A          156 QKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDS  233 (275)
T ss_dssp             HHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHH
Confidence            4566666666665554432 2222222 2445555555556666666555432110   013455566666666666666


Q ss_pred             HHHHHHHHHH
Q 045379          278 AEEIFEQLQG  287 (352)
Q Consensus       278 a~~l~~~m~~  287 (352)
                      |...|++..+
T Consensus       234 A~~~~~~al~  243 (275)
T 1xnf_A          234 ATALFKLAVA  243 (275)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            6666666654

>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=99.38  E-value=3.5e-10  Score=113.46  Aligned_cols=243  Identities=14%  Similarity=0.088  Sum_probs=191.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHh---HHHHHHHHHHHccCCHHHHHHHHH
Q 045379           67 QQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMS---CVSILLIEAYGQKSLHKKAEFTYL  143 (352)
Q Consensus        67 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~l~~  143 (352)
                      ..+...+...|.+++|..+|++........+.++.   ..++.+++.+..+.+   .+|..+..++.+.|++++|.+.|.
T Consensus      1053 ~eIA~Iai~lglyEEAf~IYkKa~~~~~A~~VLie---~i~nldrAiE~Aervn~p~vWsqLAKAql~~G~~kEAIdsYi 1129 (1630)
T 1xi4_A         1053 PDIANIAISNELFEEAFAIFRKFDVNTSAVQVLIE---HIGNLDRAYEFAERCNEPAVWSQLAKAQLQKGMVKEAIDSYI 1129 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCHHHHHHHHHH---HHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            44677788899999999999987644333444443   333333333333222   299999999999999999999996


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC
Q 045379          144 ELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPS  223 (352)
Q Consensus       144 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~  223 (352)
                      +.      -|...|..++.+|.+.|++++|.+.+...++..  ++....+.++.+|++.+++++...+.    +   .++
T Consensus      1130 KA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n 1194 (1630)
T 1xi4_A         1130 KA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPN 1194 (1630)
T ss_pred             hc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCC
Confidence            53      578899999999999999999999999888765  33333445999999999998644442    2   457


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045379          224 TETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEA  303 (352)
Q Consensus       224 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a  303 (352)
                      ...|..+-..|...|++++|..+|...         ..|..+...|.+.|++++|.+.+++.      .+..+|..+-.+
T Consensus      1195 ~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~a 1259 (1630)
T 1xi4_A         1195 NAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFA 1259 (1630)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHH
Confidence            778888999999999999999999985         47999999999999999999999987      366888888877


Q ss_pred             HH---HHHHH---hcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          304 YR---LISRM---HMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       304 ~~---~~~~m---~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      |.   -|+..   ..++..+...+..++.-|.+.|.+++|.+++.
T Consensus      1260 cve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE 1304 (1630)
T 1xi4_A         1260 CVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLE 1304 (1630)
T ss_pred             HhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            75   22222   33466788899999999999999999999985

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.37  E-value=4.7e-10  Score=95.55  Aligned_cols=215  Identities=10%  Similarity=0.021  Sum_probs=163.7

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHH
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPP--SAVVYNSYIDGLL  200 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~--~~~~~~~li~~~~  200 (352)
                      ......+.+.|++++|.+.|++..+... .+...+..+..++...|++++|.+.+++..+.+-.+  ....|..+...|.
T Consensus         7 ~~~a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~   85 (272)
T 3u4t_A            7 FRYADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILM   85 (272)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHH
Confidence            4456778899999999999999987653 245588888889999999999999999998843222  2345889999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEE  280 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~  280 (352)
                      ..|++++|...|++..+.. +.+..++..+...|...|++++|++.|++..+.. +.+...+..+...+...+++++|.+
T Consensus        86 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  163 (272)
T 3u4t_A           86 KKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADS  163 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999998864 3466889999999999999999999999987762 4456677777734445569999999


Q ss_pred             HHHHHHHCCCCCC-HHHHHHHHHHHH-------------HHHHH--hcCCCCC------HHHHHHHHHHHHHcCCcchhH
Q 045379          281 IFEQLQGAGIEPD-VYAYNALMEAYR-------------LISRM--HMGCEPD------RASYNIMVDAYGRAGLHEGKC  338 (352)
Q Consensus       281 l~~~m~~~~~~p~-~~~~~~li~a~~-------------~~~~m--~~~~~p~------~~~~~~li~a~~~~g~~~~A~  338 (352)
                      .|+++.+.  .|+ ...+..+..++.             .++..  ...-.|+      ...|..+...|.+.|++++|.
T Consensus       164 ~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  241 (272)
T 3u4t_A          164 SFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKAD  241 (272)
T ss_dssp             HHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            99999875  333 444444444333             23333  1111233      367888999999999999999


Q ss_pred             HHHH
Q 045379          339 SYSL  342 (352)
Q Consensus       339 ~~~~  342 (352)
                      +.|.
T Consensus       242 ~~~~  245 (272)
T 3u4t_A          242 AAWK  245 (272)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9986

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.37  E-value=5.3e-11  Score=101.51  Aligned_cols=221  Identities=9%  Similarity=-0.016  Sum_probs=155.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH-----------HHHHHHHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC-----------VSILLIEAY  129 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-----------~~~~li~~~  129 (352)
                      ........+...|++++|...|++.    |.+...|..+..++...++.+.+...+....           +|..+...+
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            4456677888999999998888764    3456677777777777766655554444332           477888888


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHH
Q 045379          130 GQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAV  209 (352)
Q Consensus       130 ~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~  209 (352)
                      ...|++++|.+.|++..+... .+..++..+...+...|++++|...+++..+. .+.+...+..+...+...+++++|.
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~  162 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP-TTTDPKVFYELGQAYYYNKEYVKAD  162 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS-SCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc-CCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888876543 25567888888888888888888888887766 2445566666662333445888888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCC-CCCC------HHHHHHHHHHHHhcCCHHHHH
Q 045379          210 EIFQRMKRDCCQPSTETYTLMINLYGKASK---SFMALKLFNEMRSHK-CKPN------ICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       210 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~l~~~m~~~g-~~p~------~~t~~~li~~~~~~g~~~~a~  279 (352)
                      ..|++..+.. +.+...+..+..++...|+   +++|...+++..+.. -.|+      ..+|..+...|.+.|++++|.
T Consensus       163 ~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  241 (272)
T 3u4t_A          163 SSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKAD  241 (272)
T ss_dssp             HHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            8888887763 3346677777777777777   777777777765431 1133      246777778888888888888


Q ss_pred             HHHHHHHHC
Q 045379          280 EIFEQLQGA  288 (352)
Q Consensus       280 ~l~~~m~~~  288 (352)
                      +.|++..+.
T Consensus       242 ~~~~~al~~  250 (272)
T 3u4t_A          242 AAWKNILAL  250 (272)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            888888754

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.36  E-value=9.4e-11  Score=99.99  Aligned_cols=205  Identities=14%  Similarity=0.018  Sum_probs=120.5

Q ss_pred             ccCCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH
Q 045379          131 QKSLHKKAEFTYLELLDSRCI---PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQK  207 (352)
Q Consensus       131 ~~g~~~~a~~l~~~m~~~~~~---p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  207 (352)
                      ..|++++|++.|+++.+....   .+..++..+...+...|++++|...|++..+.. +.+..++..+...|...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            346666777777666654321   134466666666666777777777776666542 3345666666666777777777


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          208 AVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       208 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      |...|++..+.. +.+..++..+...|...|++++|.+.|+++.+.  .|+.......+..+...|++++|...+.+...
T Consensus        96 A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           96 AYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            777777666642 224566666666677777777777777666653  23333344444444556677777777665554


Q ss_pred             CCCCCCHHHHHHHHHHH----------HHHHHHhcCCCC-----CHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          288 AGIEPDVYAYNALMEAY----------RLISRMHMGCEP-----DRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       288 ~~~~p~~~~~~~li~a~----------~~~~~m~~~~~p-----~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .. .++...+. +...+          ..++... ...|     +...+..+...|.+.|++++|.+.|.
T Consensus       173 ~~-~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  239 (275)
T 1xnf_A          173 KS-DKEQWGWN-IVEFYLGNISEQTLMERLKADA-TDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFK  239 (275)
T ss_dssp             HS-CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHC-CSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cC-CcchHHHH-HHHHHHHhcCHHHHHHHHHHHh-cccccccccccHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            32 12222222 11111          1222220 0111     25778889999999999999999986

>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=99.36  E-value=2e-09  Score=92.00  Aligned_cols=183  Identities=11%  Similarity=-0.007  Sum_probs=159.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCM----SGLLEKAEAVFREMRKYGLPPSAVVYNSYI  196 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~li  196 (352)
                      ++..+...+...|++++|.+.|++..+.   -+..++..+...+..    .+++++|...|++..+.+   +...+..+.
T Consensus         8 a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg   81 (273)
T 1ouv_A            8 ELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   81 (273)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            5667778889999999999999999883   356788889999999    999999999999999886   678899999


Q ss_pred             HHHHc----CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 045379          197 DGLLK----GGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGK----ASKSFMALKLFNEMRSHKCKPNICTYTALVNA  268 (352)
Q Consensus       197 ~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~  268 (352)
                      ..|..    .+++++|...|++..+.+   +..++..+-..|..    .+++++|++.|++..+.+   +...+..+...
T Consensus        82 ~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~  155 (273)
T 1ouv_A           82 NLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSL  155 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHH
Confidence            99999    999999999999998875   78899999999999    999999999999999876   67788888888


Q ss_pred             HHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH----cCCcchhHHH
Q 045379          269 FAR----EGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGR----AGLHEGKCSY  340 (352)
Q Consensus       269 ~~~----~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~----~g~~~~A~~~  340 (352)
                      |..    .+++++|...|++..+.+                           +...+..+...|..    .|++++|.++
T Consensus       156 ~~~~~~~~~~~~~A~~~~~~a~~~~---------------------------~~~a~~~lg~~~~~g~~~~~~~~~A~~~  208 (273)
T 1ouv_A          156 YDAGRGTPKDLKKALASYDKACDLK---------------------------DSPGCFNAGNMYHHGEGATKNFKEALAR  208 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---------------------------CHHHHHHHHHHHHHTCSSCCCHHHHHHH
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHCC---------------------------CHHHHHHHHHHHHcCCCCCccHHHHHHH
Confidence            988    999999999999988653                           34555667777777    8888888888


Q ss_pred             HH
Q 045379          341 SL  342 (352)
Q Consensus       341 ~~  342 (352)
                      |.
T Consensus       209 ~~  210 (273)
T 1ouv_A          209 YS  210 (273)
T ss_dssp             HH
T ss_pred             HH
Confidence            75

>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=99.35  E-value=2e-10  Score=91.41  Aligned_cols=164  Identities=12%  Similarity=0.004  Sum_probs=144.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|..+...+...|++++|.+.++++.+... .+...+..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            667788889999999999999999886543 467889999999999999999999999998763 456788999999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEE  280 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~  280 (352)
                      ..|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|..
T Consensus        88 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999998763 4578889999999999999999999999988763 4567889999999999999999999


Q ss_pred             HHHHHHHC
Q 045379          281 IFEQLQGA  288 (352)
Q Consensus       281 l~~~m~~~  288 (352)
                      .+++..+.
T Consensus       166 ~~~~~~~~  173 (186)
T 3as5_A          166 HFKKANEL  173 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHc
Confidence            99998753

>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=99.34  E-value=1.3e-10  Score=104.67  Aligned_cols=221  Identities=10%  Similarity=0.012  Sum_probs=171.2

Q ss_pred             cchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhh-ccCcchhhHHhH--------HHHHHHHH
Q 045379           62 LSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRL-NKKWDPIVLMSC--------VSILLIEA  128 (352)
Q Consensus        62 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~-~~~~~~~~~~~~--------~~~~li~~  128 (352)
                      ...+++.+...+.+.|++++|+..|++.    |.+...|+.+..++...++ .+.+...+....        +|+.+...
T Consensus        96 ~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~  175 (382)
T 2h6f_A           96 FRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            3447788899999999999999999865    3567888888888888775 655555544433        88888888


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-CCCHHH
Q 045379          129 YGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK-GGNPQK  207 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~-~g~~~~  207 (352)
                      +.+.|++++|+..|++..+... -+...|..+..++...|++++|+..++++.+.. +-+...|+.+..++.+ .|..++
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP-~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHccCHHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchH
Confidence            9999999999999998887554 267788888889999999999999999988864 3467888888888888 565577


Q ss_pred             H-----HHHHHHHHHcCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-------
Q 045379          208 A-----VEIFQRMKRDCCQPSTETYTLMINLYGKAS--KSFMALKLFNEMRSHKCKPNICTYTALVNAFAREG-------  273 (352)
Q Consensus       208 a-----~~~~~~m~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g-------  273 (352)
                      |     +..|++..+.. +-+...|+.+...+...|  ++++|++.+.++ +. .+.+...+..+...|.+.|       
T Consensus       254 A~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccch
Confidence            7     47788777653 336778888888888887  588888888887 32 3456677888888888764       


Q ss_pred             --CHHHHHHHHHHH-HH
Q 045379          274 --LCEEAEEIFEQL-QG  287 (352)
Q Consensus       274 --~~~~a~~l~~~m-~~  287 (352)
                        .+++|.++++++ .+
T Consensus       331 ~~~~~~A~~~~~~l~~~  347 (382)
T 2h6f_A          331 EDILNKALELCEILAKE  347 (382)
T ss_dssp             HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence              258899999888 54

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.34  E-value=4.8e-10  Score=89.87  Aligned_cols=163  Identities=16%  Similarity=0.140  Sum_probs=142.9

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 045379          152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMI  231 (352)
Q Consensus       152 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  231 (352)
                      -++..|..+-..+...|++++|.+.|++..+.. +-+..++..+...|.+.|++++|...+....... +.+...+..+.
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~   80 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILG   80 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHH
Confidence            367889999999999999999999999998864 4578889999999999999999999999988764 34677888889


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHh
Q 045379          232 NLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMH  311 (352)
Q Consensus       232 ~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~  311 (352)
                      ..+...++++.|...+.+..... +-+...+..+...|.+.|++++|.+.|++..+.  .                    
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~--~--------------------  137 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISI--K--------------------  137 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C--------------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHh--c--------------------
Confidence            99999999999999999987653 446778999999999999999999999998764  2                    


Q ss_pred             cCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          312 MGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       312 ~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                         +.+...|..+..+|.+.|++++|.+.|.
T Consensus       138 ---p~~~~~~~~lg~~~~~~g~~~~A~~~~~  165 (184)
T 3vtx_A          138 ---PGFIRAYQSIGLAYEGKGLRDEAVKYFK  165 (184)
T ss_dssp             ---TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ---chhhhHHHHHHHHHHHCCCHHHHHHHHH
Confidence               3377889999999999999999999986

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.33  E-value=2.4e-10  Score=105.60  Aligned_cols=294  Identities=11%  Similarity=-0.049  Sum_probs=194.4

Q ss_pred             ccCccccccccccCcCcCcchhHHHHHHHHHh--cCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhH
Q 045379           44 RGKGWKYGSGFVDGIFPVLSPTAQQILRFVQR--EVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVL  117 (352)
Q Consensus        44 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~  117 (352)
                      +.+++++...+.+...+....++..+..++.+  .+++++|+..|++.    |.++..+..+..++...+..+..++++.
T Consensus       117 ~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~  196 (472)
T 4g1t_A          117 VDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAID  196 (472)
T ss_dssp             HHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHH
T ss_pred             HHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHH
Confidence            34444444444444455555566665555544  35789999999865    3567777777777777777777666665


Q ss_pred             HhH-----------HHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 045379          118 MSC-----------VSILLIEAYGQ----KSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRK  182 (352)
Q Consensus       118 ~~~-----------~~~~li~~~~~----~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  182 (352)
                      .+.           ++..+...+..    .|++++|.+.+++...... .+..++..+...+...|++++|...+++..+
T Consensus       197 ~~~~al~l~p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  275 (472)
T 4g1t_A          197 PLRQAIRLNPDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAP-GVTDVLRSAAKFYRRKDEPDKAIELLKKALE  275 (472)
T ss_dssp             HHHHHHHHCSSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhcCCcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Confidence            443           45555444444    5778899999998887543 4677899999999999999999999999987


Q ss_pred             CCCCCCHHHHHHHHHHHHcC-------------------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 045379          183 YGLPPSAVVYNSYIDGLLKG-------------------GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMA  243 (352)
Q Consensus       183 ~g~~~~~~~~~~li~~~~~~-------------------g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  243 (352)
                      .. +.+..++..+...|...                   +.++.|...|++..+.. +.+..++..+...|...|++++|
T Consensus       276 ~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A  353 (472)
T 4g1t_A          276 YI-PNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEA  353 (472)
T ss_dssp             HS-TTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHH
T ss_pred             hC-CChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHH
Confidence            63 44566676666655432                   23567788888777653 33556788899999999999999


Q ss_pred             HHHHHHHHhCCCCCCHH--HHHHHHH-HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-HHHHHhcCCCCCHH
Q 045379          244 LKLFNEMRSHKCKPNIC--TYTALVN-AFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR-LISRMHMGCEPDRA  319 (352)
Q Consensus       244 ~~l~~~m~~~g~~p~~~--t~~~li~-~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~-~~~~m~~~~~p~~~  319 (352)
                      ++.|++..+....|...  .+..+.. .....|+.++|...|.+..+.  .|+.......+.... +++.....-+.+..
T Consensus       354 ~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~  431 (472)
T 4g1t_A          354 EYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--NQKSREKEKMKDKLQKIAKMRLSKNGADSE  431 (472)
T ss_dssp             HHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--CCCCHHHHHHHHHHHHHHHHHHHHCC-CTT
T ss_pred             HHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHHHHHHHhCCCCHH
Confidence            99999998764333221  2222222 345789999999999998865  455444433333332 33443222356788


Q ss_pred             HHHHHHHHHHHcCCcchhHHHHH
Q 045379          320 SYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       320 ~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      +|..|..+|...|++++|.+.|.
T Consensus       432 ~~~~LG~~~~~~g~~~~A~~~y~  454 (472)
T 4g1t_A          432 ALHVLAFLQELNEKMQQADEDSE  454 (472)
T ss_dssp             HHHHHHHHHHHHHHCC-------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999999999999986

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.32  E-value=1.2e-10  Score=108.26  Aligned_cols=163  Identities=15%  Similarity=0.020  Sum_probs=145.0

Q ss_pred             HHHHHHHHHHccCCH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLH-KKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~-~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      .|..+...+...|++ ++|.+.|++..+... -+...|..+..+|...|++++|.+.|++..+..  |+...+..+...|
T Consensus       104 ~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg~~~  180 (474)
T 4abn_A          104 ALMLKGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLSMVL  180 (474)
T ss_dssp             HHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHHHHH
Confidence            788899999999999 999999999987543 257899999999999999999999999998864  6778999999999


Q ss_pred             HcC---------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc--------CCHHHHHHHHHHHHhCCCC---CCH
Q 045379          200 LKG---------GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKA--------SKSFMALKLFNEMRSHKCK---PNI  259 (352)
Q Consensus       200 ~~~---------g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~--------g~~~~a~~l~~~m~~~g~~---p~~  259 (352)
                      ...         |++++|...|++..+.. +.+...|..+..+|...        |++++|++.|++..+.. +   -+.
T Consensus       181 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~  258 (474)
T 4abn_A          181 RQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVD-RKASSNP  258 (474)
T ss_dssp             TTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHC-GGGGGCH
T ss_pred             HHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhC-CCcccCH
Confidence            999         99999999999998864 44688999999999998        99999999999998752 2   378


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          260 CTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       260 ~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      ..|..+..+|...|++++|.+.|++..+.
T Consensus       259 ~~~~~lg~~~~~~g~~~~A~~~~~~al~l  287 (474)
T 4abn_A          259 DLHLNRATLHKYEESYGEALEGFSQAAAL  287 (474)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            89999999999999999999999998764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.31  E-value=3.7e-11  Score=108.97  Aligned_cols=259  Identities=14%  Similarity=-0.026  Sum_probs=181.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC----Cch----hhHHHHHHHHHHHhhccCcchhhHHhH--------------HH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP----PTH----ATWDDLINVSVQLRLNKKWDPIVLMSC--------------VS  122 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~----~~~~~l~~~~~~~~~~~~~~~~~~~~~--------------~~  122 (352)
                      ....+...+...|++++|...|++..    .+.    ..|..+...+...|+.+.+...+....              ++
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  129 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSS  129 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHH
Confidence            34567778889999999999997653    333    467777777777777665555433221              77


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhC----C-CCCCHHHHHHHHHHHHHcCC-----------------HHHHHHHHHHH
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDS----R-CIPTEDTYALLLKAYCMSGL-----------------LEKAEAVFREM  180 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~----~-~~p~~~~~~~li~~~~~~g~-----------------~~~a~~~~~~m  180 (352)
                      ..+...|...|++++|.+.|.+..+.    + .+....++..+...+...|+                 +++|.+.+++.
T Consensus       130 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~a  209 (411)
T 4a1s_A          130 GNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQEN  209 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHH
Confidence            88888888899999999988877643    1 11234477788888888888                 88888888776


Q ss_pred             HHC----CC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          181 RKY----GL-PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC-QPS----TETYTLMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       181 ~~~----g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      .+.    +. +....++..+...|...|++++|...+++..+..- .++    ..++..+...|...|++++|.+.+++.
T Consensus       210 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  289 (411)
T 4a1s_A          210 LKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRT  289 (411)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            542    11 12235777888888889999999998888765310 012    236788888889999999999988877


Q ss_pred             HhCC----CC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 045379          251 RSHK----CK-PNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMV  325 (352)
Q Consensus       251 ~~~g----~~-p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li  325 (352)
                      ....    .. ....++..+...|...|++++|...+++..+..                  .... .......++..+.
T Consensus       290 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~------------------~~~~-~~~~~~~~~~~la  350 (411)
T 4a1s_A          290 LALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIA------------------QELG-DRIGEARACWSLG  350 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH------------------HHHT-CHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH------------------HHCC-ChHHHHHHHHHHH
Confidence            5421    00 114567788888889999999999888876420                  0000 0011245678899


Q ss_pred             HHHHHcCCcchhHHHHH
Q 045379          326 DAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       326 ~a~~~~g~~~~A~~~~~  342 (352)
                      ..|.+.|++++|.++|.
T Consensus       351 ~~~~~~g~~~~A~~~~~  367 (411)
T 4a1s_A          351 NAHSAIGGHERALKYAE  367 (411)
T ss_dssp             HHHHHTTCHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHH
Confidence            99999999999999986

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.29  E-value=2.3e-08  Score=93.10  Aligned_cols=261  Identities=10%  Similarity=-0.028  Sum_probs=159.0

Q ss_pred             hhHHHHHHHHHh----cCCHHHHHHHhcCCC--CchhhHHHHHHHHHH----HhhccCcchhhHHhH------HHHHHHH
Q 045379           64 PTAQQILRFVQR----EVDSNTIWDAFDSLP--PTHATWDDLINVSVQ----LRLNKKWDPIVLMSC------VSILLIE  127 (352)
Q Consensus        64 ~~~~~l~~~~~~----~g~~~~A~~~~~~~~--~~~~~~~~l~~~~~~----~~~~~~~~~~~~~~~------~~~~li~  127 (352)
                      +.+..|...|..    .++.++|...|++..  .++..+..+...+..    .++...+...++...      .+..|..
T Consensus        76 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~  155 (490)
T 2xm6_A           76 PAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGD  155 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            355667777777    777777777776543  355555556655554    222222222222211      5666666


Q ss_pred             HHHc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          128 AYGQ----KSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCM----SGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       128 ~~~~----~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      .|..    .+++++|.+.|++..+.|   +...+..+...|..    .+++++|.+.|++..+.|   +...+..+...|
T Consensus       156 ~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y  229 (490)
T 2xm6_A          156 AYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMY  229 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            6665    677777877777777653   56677777777776    677777777777777654   345666666666


Q ss_pred             Hc----CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 045379          200 LK----GGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGK----ASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR  271 (352)
Q Consensus       200 ~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~  271 (352)
                      ..    .+++++|...|++..+.|   +...+..+-..|..    .++.++|++.|++..+.|   +...+..+-..|..
T Consensus       230 ~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~  303 (490)
T 2xm6_A          230 YFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDK  303 (490)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHH
T ss_pred             HcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc
Confidence            65    667777777777776653   45566666666666    677777777777776554   44556666666666


Q ss_pred             c-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-------------HHHHHH-hcCCCCCHHHHHHHHHHHHH--
Q 045379          272 E-----GLCEEAEEIFEQLQGAGIEPDVYAYNALMEAY-------------RLISRM-HMGCEPDRASYNIMVDAYGR--  330 (352)
Q Consensus       272 ~-----g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~-------------~~~~~m-~~~~~p~~~~~~~li~a~~~--  330 (352)
                      .     ++.++|...|++..+.|.   ...+..+-..|             ..+++. +.   .+...+..|...|..  
T Consensus       304 ~~~g~~~~~~~A~~~~~~a~~~~~---~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~---~~~~a~~~Lg~~y~~g~  377 (490)
T 2xm6_A          304 GAEGVAKNREQAISWYTKSAEQGD---ATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK---GEKAAQFNLGNALLQGK  377 (490)
T ss_dssp             CBTTBCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTS
T ss_pred             CCCCCcCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCC
Confidence            5     677777777777766542   22222222222             133333 22   345556666666666  


Q ss_pred             --cCCcchhHHHHH
Q 045379          331 --AGLHEGKCSYSL  342 (352)
Q Consensus       331 --~g~~~~A~~~~~  342 (352)
                        .++.++|.++|.
T Consensus       378 g~~~~~~~A~~~~~  391 (490)
T 2xm6_A          378 GVKKDEQQAAIWMR  391 (490)
T ss_dssp             SSCCCHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHH
Confidence              566666666654

>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=99.26  E-value=5.2e-11  Score=101.71  Aligned_cols=214  Identities=12%  Similarity=0.075  Sum_probs=145.7

Q ss_pred             HccCCHHHHHHHHHHHHh-------CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------C-CCCCHHHHHHH
Q 045379          130 GQKSLHKKAEFTYLELLD-------SRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY------G-LPPSAVVYNSY  195 (352)
Q Consensus       130 ~~~g~~~~a~~l~~~m~~-------~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g-~~~~~~~~~~l  195 (352)
                      ...|++++|.++|++..+       ...+....++..+...+...|++++|...+++..+.      + .+....++..+
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            345666666666665553       222234568888889999999999999999887653      2 22345678888


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHc------C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCC-CHHH
Q 045379          196 IDGLLKGGNPQKAVEIFQRMKRD------C-CQPSTETYTLMINLYGKASKSFMALKLFNEMRSH------KCKP-NICT  261 (352)
Q Consensus       196 i~~~~~~g~~~~a~~~~~~m~~~------~-~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~------g~~p-~~~t  261 (352)
                      ...|...|++++|...|++..+.      . .+....++..+...|...|++++|...+++..+.      +-.| ...+
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            99999999999999999887654      1 1224567888889999999999999999888654      1122 3457


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCCCHH-HHHHHHHHHH----------------HHHHHhcCCCCC
Q 045379          262 YTALVNAFAREGLCEEAEEIFEQLQGA-------GIEPDVY-AYNALMEAYR----------------LISRMHMGCEPD  317 (352)
Q Consensus       262 ~~~li~~~~~~g~~~~a~~l~~~m~~~-------~~~p~~~-~~~~li~a~~----------------~~~~m~~~~~p~  317 (352)
                      +..+...|...|++++|...+++..+.       ...+... .+..+.....                .++......+..
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            888889999999999999999888652       1122221 1111111111                111111122334


Q ss_pred             HHHHHHHHHHHHHcCCcchhHHHHHH
Q 045379          318 RASYNIMVDAYGRAGLHEGKCSYSLV  343 (352)
Q Consensus       318 ~~~~~~li~a~~~~g~~~~A~~~~~~  343 (352)
                      ..++..+...|...|++++|.++|..
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~  277 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDC  277 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            66788999999999999999999863

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.25  E-value=1.5e-10  Score=104.37  Aligned_cols=258  Identities=14%  Similarity=-0.001  Sum_probs=170.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC----Cc----hhhHHHHHHHHHHHhhccCcchhhHHh--------------HHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP----PT----HATWDDLINVSVQLRLNKKWDPIVLMS--------------CVS  122 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~----~~~~~~l~~~~~~~~~~~~~~~~~~~~--------------~~~  122 (352)
                      ....+...+...|++++|...|++..    .+    ...|..+...+...|+.+.+...+...              .++
T Consensus        11 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   90 (406)
T 3sf4_A           11 ELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   90 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHH
Confidence            44677788889999999999987652    33    245666666776666665555443321              167


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHHcCC--------------------HHHHHHHH
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDSRCI-PT----EDTYALLLKAYCMSGL--------------------LEKAEAVF  177 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~-p~----~~~~~~li~~~~~~g~--------------------~~~a~~~~  177 (352)
                      ..+...|...|++++|...+.+..+.... ++    ..++..+...+...|+                    +++|...+
T Consensus        91 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  170 (406)
T 3sf4_A           91 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFY  170 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            77778888888888888888776642100 12    3477777778888888                    88888877


Q ss_pred             HHHHHC----CCC-CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHH
Q 045379          178 REMRKY----GLP-PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC-QPS----TETYTLMINLYGKASKSFMALKLF  247 (352)
Q Consensus       178 ~~m~~~----g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~g~~~~a~~l~  247 (352)
                      ++..+.    +.. ....++..+...|...|++++|...+++..+..- .++    ..++..+...|...|++++|...+
T Consensus       171 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  250 (406)
T 3sf4_A          171 EENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYY  250 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            765432    211 1234677777788888888888888877654210 112    236777788888888888888888


Q ss_pred             HHHHhC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCC-CCCHHHH
Q 045379          248 NEMRSH----KCKPN-ICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGC-EPDRASY  321 (352)
Q Consensus       248 ~~m~~~----g~~p~-~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~-~p~~~~~  321 (352)
                      ++....    +..+. ..++..+...|...|++++|...+.+..+..                  .  ..+. .....++
T Consensus       251 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~------------------~--~~~~~~~~~~~~  310 (406)
T 3sf4_A          251 KKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIA------------------Q--ELNDRIGEGRAC  310 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH------------------H--HTTCHHHHHHHH
T ss_pred             HHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHH------------------H--hcCCcHHHHHHH
Confidence            776532    11111 4467777788888888888888888765320                  0  0000 1124566


Q ss_pred             HHHHHHHHHcCCcchhHHHHH
Q 045379          322 NIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       322 ~~li~a~~~~g~~~~A~~~~~  342 (352)
                      ..+...|...|++++|.++|.
T Consensus       311 ~~la~~~~~~g~~~~A~~~~~  331 (406)
T 3sf4_A          311 WSLGNAYTALGNHDQAMHFAE  331 (406)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHH
Confidence            778888888899988888875

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.25  E-value=3.8e-09  Score=92.23  Aligned_cols=164  Identities=12%  Similarity=0.059  Sum_probs=130.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-HH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT-ED-TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDG  198 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  198 (352)
                      .|..++..+.+.|++++|.++|++..+..  |+ .. .|..+...+.+.|++++|..+|++..+.. +++...|......
T Consensus       101 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~  177 (308)
T 2ond_A          101 LYFAYADYEESRMKYEKVHSIYNRLLAIE--DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALM  177 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSS--SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcc--ccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            77888888889999999999999998743  43 33 78889999999999999999999998764 3344555444333


Q ss_pred             H-HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHHhcCC
Q 045379          199 L-LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHK-CKP--NICTYTALVNAFAREGL  274 (352)
Q Consensus       199 ~-~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g-~~p--~~~t~~~li~~~~~~g~  274 (352)
                      . ...|++++|..+|++..+.. +-+...|..++..+.+.|++++|..+|++..... ..|  ....|..++....+.|+
T Consensus       178 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~  256 (308)
T 2ond_A          178 EYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGD  256 (308)
T ss_dssp             HHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSC
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCC
Confidence            2 23799999999999887752 3467888999999999999999999999998863 455  46678888898899999


Q ss_pred             HHHHHHHHHHHHHC
Q 045379          275 CEEAEEIFEQLQGA  288 (352)
Q Consensus       275 ~~~a~~l~~~m~~~  288 (352)
                      .++|..+++++.+.
T Consensus       257 ~~~a~~~~~~a~~~  270 (308)
T 2ond_A          257 LASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999998764

>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=99.25  E-value=6.1e-10  Score=108.08  Aligned_cols=163  Identities=13%  Similarity=0.066  Sum_probs=144.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      +|+.|...|.+.|++++|++.|++..+... -+..+|..+..++.+.|++++|++.|++..+.. +-+...|..+..+|.
T Consensus        11 al~nLG~~~~~~G~~~eAi~~~~kAl~l~P-~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~l~   88 (723)
T 4gyw_A           11 SLNNLANIKREQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTLK   88 (723)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            788999999999999999999999997543 257799999999999999999999999998863 346789999999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEE  280 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~  280 (352)
                      +.|++++|.+.|++..+.. +-+..+|+.+..+|.+.|++++|++.|++..+.. +-+...+..+...|...|++++|.+
T Consensus        89 ~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~A~~  166 (723)
T 4gyw_A           89 EMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDYDE  166 (723)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHHHH
Confidence            9999999999999998864 3468899999999999999999999999998753 3357789999999999999999999


Q ss_pred             HHHHHHH
Q 045379          281 IFEQLQG  287 (352)
Q Consensus       281 l~~~m~~  287 (352)
                      .++++.+
T Consensus       167 ~~~kal~  173 (723)
T 4gyw_A          167 RMKKLVS  173 (723)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9888753

>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=99.25  E-value=5.8e-10  Score=100.33  Aligned_cols=215  Identities=8%  Similarity=0.010  Sum_probs=110.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGL-LEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      +|+.+...+.+.|++++|++.|++..+... -+...|+.+..++...|+ +++|+..|++..+.. +-+...|..+-.++
T Consensus        99 a~~~lg~~~~~~g~~~~Al~~~~~al~l~P-~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           99 VYDYFRAVLQRDERSERAFKLTRDAIELNA-ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            444445555555556666666655554332 134455555555555554 666666665555542 23445555555555


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCCHHHH
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR-EGLCEEA  278 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~-~g~~~~a  278 (352)
                      ...|++++|...|++..+.. +-+..+|..+..++.+.|++++|+..|+++.+.. +-+...|+.+..++.+ .|..++|
T Consensus       177 ~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA  254 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRA  254 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHH
Confidence            55566666666665555542 2245555555555555566666666665555442 2244555555555555 4443444


Q ss_pred             -----HHHHHHHHHCCCCC-CHHHHHHHHHHHH------------HHHHHhcCCCCCHHHHHHHHHHHHHcC--------
Q 045379          279 -----EEIFEQLQGAGIEP-DVYAYNALMEAYR------------LISRMHMGCEPDRASYNIMVDAYGRAG--------  332 (352)
Q Consensus       279 -----~~l~~~m~~~~~~p-~~~~~~~li~a~~------------~~~~m~~~~~p~~~~~~~li~a~~~~g--------  332 (352)
                           +..|.+..+.  .| +...|+.+-..+.            .+..+ ...+.+...+..+...|.+.|        
T Consensus       255 ~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          255 VLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchH
Confidence                 3445554432  22 2223332222221            22222 222345667777777777764        


Q ss_pred             -CcchhHHHHH
Q 045379          333 -LHEGKCSYSL  342 (352)
Q Consensus       333 -~~~~A~~~~~  342 (352)
                       .+++|.++|.
T Consensus       332 ~~~~~A~~~~~  342 (382)
T 2h6f_A          332 DILNKALELCE  342 (382)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence             2477777765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.24  E-value=1.5e-10  Score=101.27  Aligned_cols=257  Identities=14%  Similarity=0.016  Sum_probs=167.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHhcCCC----Cc----hhhHHHHHHHHHHHhhccCcchhhHHh--------------HHHHH
Q 045379           67 QQILRFVQREVDSNTIWDAFDSLP----PT----HATWDDLINVSVQLRLNKKWDPIVLMS--------------CVSIL  124 (352)
Q Consensus        67 ~~l~~~~~~~g~~~~A~~~~~~~~----~~----~~~~~~l~~~~~~~~~~~~~~~~~~~~--------------~~~~~  124 (352)
                      ......+...|++++|...|++..    .+    ...+..+...+...|+.+.+...+...              .++..
T Consensus         9 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   88 (338)
T 3ro2_A            9 ALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGN   88 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHH
Confidence            445667778899999988887652    23    245666666666666655544443321              16777


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcCC--------------------HHHHHHHHHH
Q 045379          125 LIEAYGQKSLHKKAEFTYLELLDSRC-IPT----EDTYALLLKAYCMSGL--------------------LEKAEAVFRE  179 (352)
Q Consensus       125 li~~~~~~g~~~~a~~l~~~m~~~~~-~p~----~~~~~~li~~~~~~g~--------------------~~~a~~~~~~  179 (352)
                      +...+...|++++|.+.+.+..+... .++    ..++..+...+...|+                    +++|.+.+++
T Consensus        89 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~  168 (338)
T 3ro2_A           89 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEE  168 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHH
Confidence            77888888888888888877654211 012    3367777778888888                    8888877776


Q ss_pred             HHHC----CC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 045379          180 MRKY----GL-PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD----CC-QPSTETYTLMINLYGKASKSFMALKLFNE  249 (352)
Q Consensus       180 m~~~----g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~-~~~~~~~~~li~~~~~~g~~~~a~~l~~~  249 (352)
                      ..+.    +. +....++..+...|...|++++|...+++..+.    +. .....++..+...+...|++++|.+.+++
T Consensus       169 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  248 (338)
T 3ro2_A          169 NLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKK  248 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5432    11 112346677777788888888888888776542    10 01123677777888888888888888877


Q ss_pred             HHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 045379          250 MRSH----KCKP-NICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIM  324 (352)
Q Consensus       250 m~~~----g~~p-~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~l  324 (352)
                      ....    +..+ ...++..+...|...|++++|...+++..+..                  ... ........++..+
T Consensus       249 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~------------------~~~-~~~~~~~~~~~~l  309 (338)
T 3ro2_A          249 TLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIA------------------QEL-KDRIGEGRACWSL  309 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH------------------HHH-TCHHHHHHHHHHH
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH------------------Hhc-CCcHHHHHHHHHH
Confidence            6532    1111 14466777778888888888888887765320                  000 0001124567889


Q ss_pred             HHHHHHcCCcchhHHHHH
Q 045379          325 VDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       325 i~a~~~~g~~~~A~~~~~  342 (352)
                      ...|.+.|++++|.++|.
T Consensus       310 a~~~~~~g~~~~A~~~~~  327 (338)
T 3ro2_A          310 GNAYTALGNHDQAMHFAE  327 (338)
T ss_dssp             HHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHcCChHHHHHHHH
Confidence            999999999999999986

>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=99.24  E-value=5.9e-09  Score=104.77  Aligned_cols=243  Identities=12%  Similarity=0.081  Sum_probs=138.7

Q ss_pred             hcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhH---HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 045379           75 REVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSC---VSILLIEAYGQKSLHKKAEFTYLELLDSRCI  151 (352)
Q Consensus        75 ~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~  151 (352)
                      ..|++++|.+..+++ .++.+|..+..++...|+.+++-..+....   .|..++.+|.+.|++++|.+.|...++..  
T Consensus      1088 ~i~nldrAiE~Aerv-n~p~vWsqLAKAql~~G~~kEAIdsYiKAdD~say~eVa~~~~~lGkyEEAIeyL~mArk~~-- 1164 (1630)
T 1xi4_A         1088 HIGNLDRAYEFAERC-NEPAVWSQLAKAQLQKGMVKEAIDSYIKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA-- 1164 (1630)
T ss_pred             HHhhHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCHHHHHHHHHhcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--
Confidence            556666666666655 445666666666666655544444443322   56666666666666666666666554433  


Q ss_pred             CCHHHHHHHHHHHHHcCCHH----------------------------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC
Q 045379          152 PTEDTYALLLKAYCMSGLLE----------------------------KAEAVFREMRKYGLPPSAVVYNSYIDGLLKGG  203 (352)
Q Consensus       152 p~~~~~~~li~~~~~~g~~~----------------------------~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  203 (352)
                      +++...+.+..+|++.++++                            +|..+|...         ..|..+..+|.+.|
T Consensus      1165 ~e~~Idt~LafaYAKl~rleele~fI~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLg 1235 (1630)
T 1xi4_A         1165 RESYVETELIFALAKTNRLAELEEFINGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLG 1235 (1630)
T ss_pred             ccccccHHHHHHHHhhcCHHHHHHHHhCCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhC
Confidence            22222223555555555555                            444444432         24444444444444


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 045379          204 NPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFE  283 (352)
Q Consensus       204 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~  283 (352)
                      ++++|.+.+++..      +..+|..+-.+|...|++..|......     +..+...+..++..|.+.|.+++|..+++
T Consensus      1236 e~q~AIEaarKA~------n~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE 1304 (1630)
T 1xi4_A         1236 EYQAAVDGARKAN------STRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLE 1304 (1630)
T ss_pred             CHHHHHHHHHHhC------CHHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            4444444444331      334444444444444444444443332     23456667889999999999999999998


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHH------HHHHH-----hcCCCC------CHHHHHHHHHHHHHcCCcchhHHHH
Q 045379          284 QLQGAGIEPDVYAYNALMEAYR------LISRM-----HMGCEP------DRASYNIMVDAYGRAGLHEGKCSYS  341 (352)
Q Consensus       284 ~m~~~~~~p~~~~~~~li~a~~------~~~~m-----~~~~~p------~~~~~~~li~a~~~~g~~~~A~~~~  341 (352)
                      ...... .-....|+-+...++      +.+..     .-.++|      +...|.-++-.|.+.|+++.|....
T Consensus      1305 ~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm 1378 (1630)
T 1xi4_A         1305 AALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM 1378 (1630)
T ss_pred             HHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHH
Confidence            776443 233445655555555      11111     112222      5677999999999999999998553

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.24  E-value=4.3e-08  Score=91.28  Aligned_cols=262  Identities=14%  Similarity=0.078  Sum_probs=202.7

Q ss_pred             hhHHHHHHHHHh----cCCHHHHHHHhcCCC--CchhhHHHHHHHHHH----HhhccCcchhhHHh------HHHHHHHH
Q 045379           64 PTAQQILRFVQR----EVDSNTIWDAFDSLP--PTHATWDDLINVSVQ----LRLNKKWDPIVLMS------CVSILLIE  127 (352)
Q Consensus        64 ~~~~~l~~~~~~----~g~~~~A~~~~~~~~--~~~~~~~~l~~~~~~----~~~~~~~~~~~~~~------~~~~~li~  127 (352)
                      ..+..|..+|..    .+++++|...|++..  .++..+..+...|..    .++...+...++..      .++..|..
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~  191 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGY  191 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            366778888888    789999999998754  456677777777665    22222222222221      17788888


Q ss_pred             HHHc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          128 AYGQ----KSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCM----SGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       128 ~~~~----~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      .|..    .+++++|.+.|++..+.|   +..++..+...|..    .+++++|...|++..+.|   +...+..+-..|
T Consensus       192 ~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y  265 (490)
T 2xm6_A          192 MYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYIL  265 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHH
T ss_pred             HHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            8887    899999999999998864   66788888888887    889999999999998875   456777777778


Q ss_pred             Hc----CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 045379          200 LK----GGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKA-----SKSFMALKLFNEMRSHKCKPNICTYTALVNAFA  270 (352)
Q Consensus       200 ~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-----g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~  270 (352)
                      ..    .+++++|...|++..+.|   +...+..|-..|...     +++++|+..|++..+.|   +...+..+-..|.
T Consensus       266 ~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~  339 (490)
T 2xm6_A          266 EQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYF  339 (490)
T ss_dssp             HHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHH
Confidence            77    899999999999998765   567888888888887     89999999999998875   5667888888888


Q ss_pred             hcC---CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH--------------HHHHH-hcCCCCCHHHHHHHHHHHHH--
Q 045379          271 REG---LCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR--------------LISRM-HMGCEPDRASYNIMVDAYGR--  330 (352)
Q Consensus       271 ~~g---~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~--------------~~~~m-~~~~~p~~~~~~~li~a~~~--  330 (352)
                      ..|   +.++|.++|++..+.|   +...+..+-..|.              .+++. +.+   +...+..|...|.+  
T Consensus       340 ~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~  413 (490)
T 2xm6_A          340 RLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGL  413 (490)
T ss_dssp             HSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTS
T ss_pred             hCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCC
Confidence            766   8899999999998874   4555555544443              55555 433   67888899999998  


Q ss_pred             --cCCcchhHHHHHH
Q 045379          331 --AGLHEGKCSYSLV  343 (352)
Q Consensus       331 --~g~~~~A~~~~~~  343 (352)
                        .|+.++|.+.|..
T Consensus       414 g~~~d~~~A~~~~~~  428 (490)
T 2xm6_A          414 GVERDYVQAWAWFDT  428 (490)
T ss_dssp             SSCCCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence              8999999999863

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.24  E-value=7.6e-10  Score=99.67  Aligned_cols=216  Identities=10%  Similarity=-0.044  Sum_probs=157.6

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CC----CCCHHHHH
Q 045379          125 LIEAYGQKSLHKKAEFTYLELLDS----RCIP-TEDTYALLLKAYCMSGLLEKAEAVFREMRKY--GL----PPSAVVYN  193 (352)
Q Consensus       125 li~~~~~~g~~~~a~~l~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~----~~~~~~~~  193 (352)
                      ....+...|++++|.+.|++..+.    +-.+ ...++..+...+...|++++|...+.+..+.  ..    +....+++
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            556678899999999999999763    1112 3458889999999999999999999988653  11    11246788


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHHHHH
Q 045379          194 SYIDGLLKGGNPQKAVEIFQRMKRDCC-QPS----TETYTLMINLYGKASKSFMALKLFNEMRSH----KC-KPNICTYT  263 (352)
Q Consensus       194 ~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----g~-~p~~~t~~  263 (352)
                      .+...|...|++++|...|++..+..- .++    ..+++.+...|...|++++|++.+++..+.    +. +....++.
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            899999999999999999998765310 112    247888999999999999999999998762    33 33456789


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHH---HHHHHHHH-------------HHHHHHhcCCC-CCHHHHHHHH
Q 045379          264 ALVNAFAREGLCEEAEEIFEQLQGAG-IEPDVYA---YNALMEAY-------------RLISRMHMGCE-PDRASYNIMV  325 (352)
Q Consensus       264 ~li~~~~~~g~~~~a~~l~~~m~~~~-~~p~~~~---~~~li~a~-------------~~~~~m~~~~~-p~~~~~~~li  325 (352)
                      .+...|.+.|++++|...+++..+.. -..+...   +..+-..+             .+++..  +.. .....+..+.
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~--~~~~~~~~~~~~la  346 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK--MLYADLEDFAIDVA  346 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC--cCHHHHHHHHHHHH
Confidence            99999999999999999999886531 1112221   22222111             122222  222 2345678899


Q ss_pred             HHHHHcCCcchhHHHHH
Q 045379          326 DAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       326 ~a~~~~g~~~~A~~~~~  342 (352)
                      ..|...|++++|.++|.
T Consensus       347 ~~y~~~g~~~~A~~~~~  363 (383)
T 3ulq_A          347 KYYHERKNFQKASAYFL  363 (383)
T ss_dssp             HHHHHTTCHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHH
Confidence            99999999999999986

>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=99.24  E-value=2.7e-09  Score=84.83  Aligned_cols=164  Identities=11%  Similarity=-0.039  Sum_probs=138.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhcCCCC-chhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHH
Q 045379           64 PTAQQILRFVQREVDSNTIWDAFDSLPP-THATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTY  142 (352)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~  142 (352)
                      ..+..+...+...|++++|...|++... ++..                       ..++..+...+...|++++|.+.+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~A~~~~   65 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADAFD-----------------------VDVALHLGIAYVKTGAVDRGTELL   65 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCC-----------------------HHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccC-----------------------hHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3567788899999999999999998752 1111                       115667778889999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC
Q 045379          143 LELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQP  222 (352)
Q Consensus       143 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  222 (352)
                      ++..+... .+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...+++..+.. +.
T Consensus        66 ~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~  142 (186)
T 3as5_A           66 ERSLADAP-DNVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PN  142 (186)
T ss_dssp             HHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHhcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-cc
Confidence            99987542 467889999999999999999999999998763 4577889999999999999999999999998874 44


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          223 STETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       223 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      +..++..+...+...|++++|.+.+++..+.
T Consensus       143 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          143 EGKVHRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            6889999999999999999999999988653

>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=99.19  E-value=2.5e-09  Score=103.83  Aligned_cols=162  Identities=15%  Similarity=0.087  Sum_probs=142.9

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMIN  232 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  232 (352)
                      +..+|+.+-.++.+.|++++|++.|++..+.. +-+...+..+..+|.+.|++++|...|++..+.. +-+..+|+.+-.
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            35689999999999999999999999998863 4467899999999999999999999999998864 336889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhc
Q 045379          233 LYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHM  312 (352)
Q Consensus       233 ~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~  312 (352)
                      +|.+.|++++|++.|++..+.. +-+...|+.+...|.+.|++++|++.|++..+.  .|+                   
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~-------------------  143 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPD-------------------  143 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSC-------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC-------------------
Confidence            9999999999999999988753 335788999999999999999999999998864  233                   


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          313 GCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       313 ~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                          +...+..+..+|...|++++|.+.+.
T Consensus       144 ----~~~a~~~L~~~l~~~g~~~~A~~~~~  169 (723)
T 4gyw_A          144 ----FPDAYCNLAHCLQIVCDWTDYDERMK  169 (723)
T ss_dssp             ----CHHHHHHHHHHHHHTTCCTTHHHHHH
T ss_pred             ----ChHHHhhhhhHHHhcccHHHHHHHHH
Confidence                67888999999999999999999875

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.19  E-value=3.4e-09  Score=95.26  Aligned_cols=278  Identities=10%  Similarity=-0.055  Sum_probs=186.8

Q ss_pred             hHHHHHHHH--HhcCCHHHHHHHhcCCC-------C--chhhHHHHHHHHH--HHhhccCcc---------hhhHHhH--
Q 045379           65 TAQQILRFV--QREVDSNTIWDAFDSLP-------P--THATWDDLINVSV--QLRLNKKWD---------PIVLMSC--  120 (352)
Q Consensus        65 ~~~~l~~~~--~~~g~~~~A~~~~~~~~-------~--~~~~~~~l~~~~~--~~~~~~~~~---------~~~~~~~--  120 (352)
                      +.+.|-..|  .+.+++++|..+++++.       .  +...|-.++..-.  ..+......         ..+....  
T Consensus        12 v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~   91 (378)
T 3q15_A           12 VGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLETIETP   91 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHHHHHGG
T ss_pred             HHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHHHHhcc
Confidence            667777788  78999999988887542       2  2333333333211  112222222         2222221  


Q ss_pred             -----------HHHHHHHHHHccCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-
Q 045379          121 -----------VSILLIEAYGQKSLHKKAEFTYLELLDSRC-IPT----EDTYALLLKAYCMSGLLEKAEAVFREMRKY-  183 (352)
Q Consensus       121 -----------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~-~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-  183 (352)
                                 .|......+...|++++|...|.+..+.-. .++    ..++..+...|...|+++.|...+++..+. 
T Consensus        92 ~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~  171 (378)
T 3q15_A           92 QKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIY  171 (378)
T ss_dssp             GHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence                       233445567789999999999999875421 122    447888999999999999999999887652 


Q ss_pred             ---CC-C-CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          184 ---GL-P-PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD----CCQ-PSTETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       184 ---g~-~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~-~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                         +- . ....+++.+...|...|++++|...|++..+.    +-. ....+++.+...|...|++++|++.|++..+.
T Consensus       172 ~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~  251 (378)
T 3q15_A          172 QNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKV  251 (378)
T ss_dssp             HTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence               11 1 12567888999999999999999999987652    111 12357888999999999999999999998761


Q ss_pred             ----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC---CCCH-HHHHHHHHHHH----------HHHHH-hcCC
Q 045379          254 ----KCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGI---EPDV-YAYNALMEAYR----------LISRM-HMGC  314 (352)
Q Consensus       254 ----g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~---~p~~-~~~~~li~a~~----------~~~~m-~~~~  314 (352)
                          +.+....++..+...|.+.|++++|...+++..+..-   .|.. ..+..+-..+.          .+... ..+.
T Consensus       252 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~  331 (378)
T 3q15_A          252 SREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNL  331 (378)
T ss_dssp             HHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTC
T ss_pred             HHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCC
Confidence                2233367889999999999999999999999876421   1222 22222211111          11111 1112


Q ss_pred             -CCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          315 -EPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       315 -~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                       +.....+..+...|...|++++|.++|.
T Consensus       332 ~~~~~~~~~~la~~y~~~g~~~~A~~~~~  360 (378)
T 3q15_A          332 HAYIEACARSAAAVFESSCHFEQAAAFYR  360 (378)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence             2234567788999999999999999986

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.18  E-value=1.4e-08  Score=88.67  Aligned_cols=187  Identities=12%  Similarity=0.091  Sum_probs=144.7

Q ss_pred             HccCCH-------HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HH-HHHHHHHHHH
Q 045379          130 GQKSLH-------KKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS-AV-VYNSYIDGLL  200 (352)
Q Consensus       130 ~~~g~~-------~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~-~~-~~~~li~~~~  200 (352)
                      .+.|++       ++|..+|++..+.-.+-+...|..+...+.+.|++++|.++|++..+.  .|+ .. .|..+...+.
T Consensus        68 ~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~  145 (308)
T 2ond_A           68 AEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFAR  145 (308)
T ss_dssp             HHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHH
T ss_pred             hhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHH
Confidence            456775       999999999988422235679999999999999999999999999984  343 33 8999999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLY-GKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  279 (352)
                      +.|++++|..+|++..+.. +++...|....... ...|++++|.++|++..+.. +-+...|..++..+.+.|++++|.
T Consensus       146 ~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~  223 (308)
T 2ond_A          146 RAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTR  223 (308)
T ss_dssp             HHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHH
Confidence            9999999999999998864 33455554443332 23799999999999987652 346788999999999999999999


Q ss_pred             HHHHHHHHCC-CCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          280 EIFEQLQGAG-IEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       280 ~l~~~m~~~~-~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .+|++..+.. +.|+                      -....|..++..+.+.|+.++|..++.
T Consensus       224 ~~~~~al~~~~l~p~----------------------~~~~l~~~~~~~~~~~g~~~~a~~~~~  265 (308)
T 2ond_A          224 VLFERVLTSGSLPPE----------------------KSGEIWARFLAFESNIGDLASILKVEK  265 (308)
T ss_dssp             HHHHHHHHSSSSCGG----------------------GCHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             HHHHHHHhccCCCHH----------------------HHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999998752 3331                      135566667777777777777777764

>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=99.17  E-value=7.4e-09  Score=85.92  Aligned_cols=151  Identities=12%  Similarity=-0.118  Sum_probs=127.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|......+.+.|++++|.+.|++..+...+++...+..+..++...|++++|...+++..+.. +.+...+..+...|.
T Consensus         9 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~   87 (228)
T 4i17_A            9 QLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSAAYR   87 (228)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHHHHH
Confidence            5666778899999999999999999987665788888889999999999999999999998864 345678899999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPST-------ETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN---ICTYTALVNAFA  270 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~-------~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~---~~t~~~li~~~~  270 (352)
                      ..|++++|...|++..+.. +.+.       ..|..+-..+...|++++|++.|++..+.  .|+   ...+..+...|.
T Consensus        88 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~~  164 (228)
T 4i17_A           88 DMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLFY  164 (228)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHHH
T ss_pred             HcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHHH
Confidence            9999999999999998863 2344       55888888999999999999999999875  455   567888888887


Q ss_pred             hcCCH
Q 045379          271 REGLC  275 (352)
Q Consensus       271 ~~g~~  275 (352)
                      ..|+.
T Consensus       165 ~~~~~  169 (228)
T 4i17_A          165 NNGAD  169 (228)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77766

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.17  E-value=2e-08  Score=92.72  Aligned_cols=212  Identities=8%  Similarity=-0.036  Sum_probs=114.2

Q ss_pred             CcchhHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHH
Q 045379           61 VLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEF  140 (352)
Q Consensus        61 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  140 (352)
                      ....++|.|...|...|+.++|++.|++..          ..+-.....   ..-.....+|+.+...|...|++++|..
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl----------~~~~~~~~~---~~~~~~~~~~~nla~~y~~~g~~~~A~~  115 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAE----------ELIQQEHAD---QAEIRSLVTWGNYAWVYYHMGRLSDVQI  115 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHH----------HHHHHHSGG---GCTTTTHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHH----------HHHHhcCcc---ccchHHHHHHHHHHHHHHHcCChHHHHH
Confidence            335588999999999999999998887531          110000000   0001111156666666777777777776


Q ss_pred             HHHHHHhC-----C-CC-CCHHHHHHHHHHHHHc--CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH---HHcCCCHHHH
Q 045379          141 TYLELLDS-----R-CI-PTEDTYALLLKAYCMS--GLLEKAEAVFREMRKYGLPPSAVVYNSYIDG---LLKGGNPQKA  208 (352)
Q Consensus       141 l~~~m~~~-----~-~~-p~~~~~~~li~~~~~~--g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~---~~~~g~~~~a  208 (352)
                      .+++..+.     + .. ....++.....++...  +++++|.+.|++..+.. +-+...+..+..+   +...++.++|
T Consensus       116 ~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~a  194 (472)
T 4g1t_A          116 YVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNA  194 (472)
T ss_dssp             HHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCT
T ss_pred             HHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHH
Confidence            66655431     1 01 1234555544444443  35667777777666542 2233333333333   3344556666


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 045379          209 VEIFQRMKRDCCQPSTETYTLMINLYGK----ASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQ  284 (352)
Q Consensus       209 ~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~  284 (352)
                      ++.+++..+.. +.+..++..+...+..    .|++++|.+.+++..... +.+..++..+...|...|++++|...+.+
T Consensus       195 l~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~  272 (472)
T 4g1t_A          195 IDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKK  272 (472)
T ss_dssp             HHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHH
Confidence            66666665542 2244455444444433    344566666666665432 33455666666777777777777777776


Q ss_pred             HHHC
Q 045379          285 LQGA  288 (352)
Q Consensus       285 m~~~  288 (352)
                      ..+.
T Consensus       273 al~~  276 (472)
T 4g1t_A          273 ALEY  276 (472)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            6553

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.16  E-value=4.9e-10  Score=104.08  Aligned_cols=160  Identities=9%  Similarity=-0.098  Sum_probs=139.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc---------CCHHHHHHHHHHHHHCCCCCCHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMS---------GLLEKAEAVFREMRKYGLPPSAVV  191 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~---------g~~~~a~~~~~~m~~~g~~~~~~~  191 (352)
                      +|..+...|.+.|++++|.+.|++..+..  |+...+..+..++...         |++++|.+.+++..+.. +.+...
T Consensus       139 a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~  215 (474)
T 4abn_A          139 AWNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRS  215 (474)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHH
Confidence            77888889999999999999999999865  7788999999999999         99999999999998864 456788


Q ss_pred             HHHHHHHHHcC--------CCHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 045379          192 YNSYIDGLLKG--------GNPQKAVEIFQRMKRDCCQ---PSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNIC  260 (352)
Q Consensus       192 ~~~li~~~~~~--------g~~~~a~~~~~~m~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~  260 (352)
                      |..+..+|...        |++++|...|++..+.. +   -+...|..+..+|...|++++|.+.|++..+.. +-+..
T Consensus       216 ~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~  293 (474)
T 4abn_A          216 WYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVD-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPE  293 (474)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHC-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhC-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHH
Confidence            99999999998        99999999999998863 2   388999999999999999999999999998753 34567


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          261 TYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       261 t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      .+..+...+...|++++|.+.+.++
T Consensus       294 a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          294 PQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccc
Confidence            7899999999999999998876554

>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=99.13  E-value=9e-10  Score=93.91  Aligned_cols=167  Identities=19%  Similarity=0.150  Sum_probs=132.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------C-CC
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDS------RCIP-TEDTYALLLKAYCMSGLLEKAEAVFREMRKY------G-LP  186 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~------~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g-~~  186 (352)
                      ++..+...|...|++++|.+.|.+..+.      +-.| ...++..+...+...|++++|...+++..+.      . .+
T Consensus        45 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  124 (283)
T 3edt_B           45 MLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHP  124 (283)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCCh
Confidence            7788889999999999999999988753      2222 3558888999999999999999999888754      1 23


Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------
Q 045379          187 PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD------CCQP-STETYTLMINLYGKASKSFMALKLFNEMRSH------  253 (352)
Q Consensus       187 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~~~-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~------  253 (352)
                      ....++..+...|...|++++|...|++..+.      +-.| ...++..+...|...|++++|...+++..+.      
T Consensus       125 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~  204 (283)
T 3edt_B          125 DVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEF  204 (283)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcC
Confidence            34677888999999999999999999988764      1122 3567888999999999999999999887652      


Q ss_pred             ------------------------------------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          254 ------------------------------------------KCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       254 ------------------------------------------g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                                                                ..+....++..+...|...|++++|..++++..+
T Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          205 GSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             SSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                                                      1112234688889999999999999999998865

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.13  E-value=8.3e-08  Score=90.26  Aligned_cols=281  Identities=11%  Similarity=0.018  Sum_probs=175.4

Q ss_pred             cCcCcchhHHHHHHHHHhcCCHHHHHHHhcCCC---CchhhHHHHHHHHH-HHhhccCcch----hhHH-----------
Q 045379           58 IFPVLSPTAQQILRFVQREVDSNTIWDAFDSLP---PTHATWDDLINVSV-QLRLNKKWDP----IVLM-----------  118 (352)
Q Consensus        58 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~l~~~~~-~~~~~~~~~~----~~~~-----------  118 (352)
                      .+|.........+..+.+.|++++|..+|++..   |++..|...+.... ..++.+.+.+    +++.           
T Consensus        41 ~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~  120 (530)
T 2ooe_A           41 QFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMS  120 (530)
T ss_dssp             TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTC
T ss_pred             HCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCccc
Confidence            367777788999999999999999999998753   67777776665332 2333333222    1111           


Q ss_pred             hHHHHHHHHHHHc---------cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-------------HHcCCHHH----
Q 045379          119 SCVSILLIEAYGQ---------KSLHKKAEFTYLELLDSRCIPTEDTYALLLKAY-------------CMSGLLEK----  172 (352)
Q Consensus       119 ~~~~~~li~~~~~---------~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~-------------~~~g~~~~----  172 (352)
                      ...|...+....+         .|++++|.++|++..+....+....|.......             .+.++++.    
T Consensus       121 ~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~  200 (530)
T 2ooe_A          121 YQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRV  200 (530)
T ss_dssp             HHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHH
Confidence            1256666665544         678888888888887621111122332211100             01112222    


Q ss_pred             --------------------------------------------------------HHHHHHHHHHCCCCCCHHHHHHHH
Q 045379          173 --------------------------------------------------------AEAVFREMRKYGLPPSAVVYNSYI  196 (352)
Q Consensus       173 --------------------------------------------------------a~~~~~~m~~~g~~~~~~~~~~li  196 (352)
                                                                              +..+|++..+. .+.+...|....
T Consensus       201 ~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~-~p~~~~~w~~~~  279 (530)
T 2ooe_A          201 AKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV-LGHHPDIWYEAA  279 (530)
T ss_dssp             HHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHH-HTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHh-CCCCHHHHHHHH
Confidence                                                                    23333333332 123455566666


Q ss_pred             HHHHc-------CCCHH-------HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HH
Q 045379          197 DGLLK-------GGNPQ-------KAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN--IC  260 (352)
Q Consensus       197 ~~~~~-------~g~~~-------~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~--~~  260 (352)
                      ..+.+       .|+++       +|..+|++..+.-.+.+...|..++..+.+.|++++|..+|++..+.  .|+  ..
T Consensus       280 ~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~  357 (530)
T 2ooe_A          280 QYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTL  357 (530)
T ss_dssp             HHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHH
T ss_pred             HHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchH
Confidence            66554       68876       88888888876323446788888888888899999999999988875  444  24


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH--HHHHH---------HHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 045379          261 TYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAY--NALME---------AYRLISRMHMGCEPDRASYNIMVDAYG  329 (352)
Q Consensus       261 t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~--~~li~---------a~~~~~~m~~~~~p~~~~~~~li~a~~  329 (352)
                      .|...+..+.+.|++++|.++|++..+..- .+...|  .+.+.         |..+|+..-...+-+...|..++..+.
T Consensus       358 ~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~  436 (530)
T 2ooe_A          358 VYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLS  436 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            788888888888889999999988876521 122222  22221         222566552222446788888888888


Q ss_pred             HcCCcchhHHHHH
Q 045379          330 RAGLHEGKCSYSL  342 (352)
Q Consensus       330 ~~g~~~~A~~~~~  342 (352)
                      +.|+.++|..+|.
T Consensus       437 ~~g~~~~Ar~~~~  449 (530)
T 2ooe_A          437 HLNEDNNTRVLFE  449 (530)
T ss_dssp             TTTCHHHHHHHHH
T ss_pred             hCCCHhhHHHHHH
Confidence            8999999988886

>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=99.13  E-value=8e-09  Score=77.26  Aligned_cols=129  Identities=19%  Similarity=0.181  Sum_probs=79.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      +|..+...+...|++++|.++++++.+... .+...+..+...+...|++++|...++++.+.+ +.+...+..+...+.
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            355566666677777777777777665432 245566666666666777777777776666543 334555666666666


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      ..|++++|.+.++++.+.. +.+..++..+...+...|++++|.+.++++..
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            6666666666666665542 22455555666666666666666666665544

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.11  E-value=2.3e-09  Score=96.47  Aligned_cols=216  Identities=8%  Similarity=-0.037  Sum_probs=154.8

Q ss_pred             HHHHHHhcCCHHHHHHHhcCC-------CC---chhhHHHHHHHHHHHhhccCcchhhHHh---------------HHHH
Q 045379           69 ILRFVQREVDSNTIWDAFDSL-------PP---THATWDDLINVSVQLRLNKKWDPIVLMS---------------CVSI  123 (352)
Q Consensus        69 l~~~~~~~g~~~~A~~~~~~~-------~~---~~~~~~~l~~~~~~~~~~~~~~~~~~~~---------------~~~~  123 (352)
                      ....+...|++++|...|++.       +.   ....+..+...+...|+...+...+...               .+++
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            556677889999998888653       21   2356777777777766665444433221               2788


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CC-CCCHHHHH
Q 045379          124 LLIEAYGQKSLHKKAEFTYLELLDS----RCIP-TEDTYALLLKAYCMSGLLEKAEAVFREMRKY----GL-PPSAVVYN  193 (352)
Q Consensus       124 ~li~~~~~~g~~~~a~~l~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~~~~~~~~  193 (352)
                      .+...|...|++++|.+.|.+..+.    +-.+ ...++..+..+|...|++++|...+++..+.    +. +....++.
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            8888999999999999999887642    1111 1237888888999999999999999888762    33 44467788


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHc----CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCC-HHHHHHH
Q 045379          194 SYIDGLLKGGNPQKAVEIFQRMKRD----CCQPSTETYTLMINLYGKASK---SFMALKLFNEMRSHKCKPN-ICTYTAL  265 (352)
Q Consensus       194 ~li~~~~~~g~~~~a~~~~~~m~~~----~~~~~~~~~~~li~~~~~~g~---~~~a~~l~~~m~~~g~~p~-~~t~~~l  265 (352)
                      .+...|.+.|++++|...+++..+.    +-+.....++.+-..|...|+   +++|+.++++.   +..|+ ...+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHH
Confidence            8999999999999999999887642    111123345678888888888   67777777765   22233 3467778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 045379          266 VNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       266 i~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      ...|...|++++|...+++..+
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            8899999999999999988764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.10  E-value=9.8e-10  Score=99.56  Aligned_cols=225  Identities=15%  Similarity=-0.037  Sum_probs=171.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhcCCC----------CchhhHHHHHHHHHHHhhccCcchhhHHhH-------------
Q 045379           64 PTAQQILRFVQREVDSNTIWDAFDSLP----------PTHATWDDLINVSVQLRLNKKWDPIVLMSC-------------  120 (352)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~~----------~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-------------  120 (352)
                      .++..+...|...|++++|...|++..          .....+..+...+...|+.+.+...+....             
T Consensus        87 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  166 (411)
T 4a1s_A           87 AIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEG  166 (411)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHH
Confidence            367889999999999999988886542          234567777778877777766555443322             


Q ss_pred             -HHHHHHHHHHccCC-----------------HHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHH
Q 045379          121 -VSILLIEAYGQKSL-----------------HKKAEFTYLELLDS----RCIP-TEDTYALLLKAYCMSGLLEKAEAVF  177 (352)
Q Consensus       121 -~~~~li~~~~~~g~-----------------~~~a~~l~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~  177 (352)
                       ++..+...|...|+                 +++|.+.+.+..+.    +..| ...++..+...+...|++++|...+
T Consensus       167 ~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  246 (411)
T 4a1s_A          167 RALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHH  246 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence             78889999999999                 99999999887542    1112 2348888999999999999999999


Q ss_pred             HHHHHCCC-----CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC--C---CCHHHHHHHHHHHHhcCCHHHHHHHH
Q 045379          178 REMRKYGL-----PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC--Q---PSTETYTLMINLYGKASKSFMALKLF  247 (352)
Q Consensus       178 ~~m~~~g~-----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~---~~~~~~~~li~~~~~~g~~~~a~~l~  247 (352)
                      ++..+..-     ......+..+...|...|++++|...|++..+...  .   ....++..+...|...|++++|...+
T Consensus       247 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  326 (411)
T 4a1s_A          247 QERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYH  326 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            98865311     11134788899999999999999999998765311  0   12567888999999999999999999


Q ss_pred             HHHHhC----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          248 NEMRSH----KC-KPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       248 ~~m~~~----g~-~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      ++....    +. .....++..+...|.+.|++++|.+.+++..+.
T Consensus       327 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          327 NRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            987653    11 112347888899999999999999999998753

>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=99.10  E-value=1.1e-08  Score=76.44  Aligned_cols=131  Identities=20%  Similarity=0.242  Sum_probs=114.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 045379          155 DTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLY  234 (352)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  234 (352)
                      ..|..+...+...|++++|..+++++.+.. +.+...+..+...+...|++++|...++++.+.+ +.+...+..+...+
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            357788889999999999999999998764 4567888899999999999999999999998764 44678899999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          235 GKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       235 ~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      ...|++++|.+.++++.... +.+...+..+...+.+.|++++|...+.++.+.
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            99999999999999998753 346788999999999999999999999998754

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.10  E-value=5e-08  Score=87.21  Aligned_cols=257  Identities=13%  Similarity=0.017  Sum_probs=134.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhcC----CCCc-hh----hHHHHHHHHHHHhhccCcchhhHHhH--------------HH
Q 045379           66 AQQILRFVQREVDSNTIWDAFDS----LPPT-HA----TWDDLINVSVQLRLNKKWDPIVLMSC--------------VS  122 (352)
Q Consensus        66 ~~~l~~~~~~~g~~~~A~~~~~~----~~~~-~~----~~~~l~~~~~~~~~~~~~~~~~~~~~--------------~~  122 (352)
                      .......+...|++++|...+++    .+++ ..    .++.+...+...|+.+.+...+....              ++
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            34455666788999999887654    2322 11    23334444444444443333332211              34


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhC----CCC--C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC----CCCHHH
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDS----RCI--P-TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGL----PPSAVV  191 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~----~~~--p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~----~~~~~~  191 (352)
                      +.+...+...|++++|.+.+++..+.    +..  | ....+..+...+...|++++|...+++..+..-    +....+
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            55556666666666666666665431    111  2 123445555666666666666666666544211    112345


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC--CHHHHH----HHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHH
Q 045379          192 YNSYIDGLLKGGNPQKAVEIFQRMKRDCCQP--STETYT----LMINLYGKASKSFMALKLFNEMRSHKCKP---NICTY  262 (352)
Q Consensus       192 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~----~li~~~~~~g~~~~a~~l~~~m~~~g~~p---~~~t~  262 (352)
                      +..+...+...|++++|...+++.....-.+  ......    ..+..+...|++++|...+++.......+   ....+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            5556666666666666666666654321111  111111    12233556666666666666654432111   12234


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHHcCCcchhHHHH
Q 045379          263 TALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDR-ASYNIMVDAYGRAGLHEGKCSYS  341 (352)
Q Consensus       263 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~-~~~~~li~a~~~~g~~~~A~~~~  341 (352)
                      ..+...+...|++++|...+++..+..-                    ..+..++. ..+..+..++...|+.++|.+.|
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~~~--------------------~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l  316 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNENAR--------------------SLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVL  316 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHH--------------------HTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHH--------------------hCcchhhHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            5555666666666666666666542100                    11111122 25566777888888988888887


Q ss_pred             H
Q 045379          342 L  342 (352)
Q Consensus       342 ~  342 (352)
                      .
T Consensus       317 ~  317 (373)
T 1hz4_A          317 L  317 (373)
T ss_dssp             H
T ss_pred             H
Confidence            5

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.09  E-value=6.6e-10  Score=97.05  Aligned_cols=225  Identities=13%  Similarity=-0.033  Sum_probs=170.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhcCCC----------CchhhHHHHHHHHHHHhhccCcchhhHHhH-------------
Q 045379           64 PTAQQILRFVQREVDSNTIWDAFDSLP----------PTHATWDDLINVSVQLRLNKKWDPIVLMSC-------------  120 (352)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~~----------~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-------------  120 (352)
                      .++..+...|...|++++|...|++..          .....+..+...+...|+.+.+...+....             
T Consensus        44 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  123 (338)
T 3ro2_A           44 AIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEA  123 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHH
Confidence            467889999999999999999887642          124567777777777777666555443322             


Q ss_pred             -HHHHHHHHHHccCC--------------------HHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCCHHHHH
Q 045379          121 -VSILLIEAYGQKSL--------------------HKKAEFTYLELLDS----RCIP-TEDTYALLLKAYCMSGLLEKAE  174 (352)
Q Consensus       121 -~~~~li~~~~~~g~--------------------~~~a~~l~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~  174 (352)
                       ++..+...+...|+                    +++|.+.+++..+.    +..| ...++..+...+...|++++|.
T Consensus       124 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  203 (338)
T 3ro2_A          124 RALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAV  203 (338)
T ss_dssp             HHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence             78888999999999                    99999999877532    1112 2347888889999999999999


Q ss_pred             HHHHHHHHC----CC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCCHHHHH
Q 045379          175 AVFREMRKY----GL-PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC-QPS----TETYTLMINLYGKASKSFMAL  244 (352)
Q Consensus       175 ~~~~~m~~~----g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~g~~~~a~  244 (352)
                      ..+++..+.    +. .....++..+...|...|++++|...+++..+... ..+    ..++..+...|...|++++|.
T Consensus       204 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  283 (338)
T 3ro2_A          204 IAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAI  283 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHH
Confidence            999987643    11 11234788889999999999999999998765311 111    567888999999999999999


Q ss_pred             HHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          245 KLFNEMRSH----KCK-PNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       245 ~l~~~m~~~----g~~-p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      ..+++....    +-. ....++..+...|.+.|++++|...+++..+.
T Consensus       284 ~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          284 DYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            999987543    111 11447888999999999999999999998764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.09  E-value=8.7e-10  Score=99.36  Aligned_cols=224  Identities=13%  Similarity=-0.040  Sum_probs=170.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhcCCC----------CchhhHHHHHHHHHHHhhccCcchhhHHhH-------------
Q 045379           64 PTAQQILRFVQREVDSNTIWDAFDSLP----------PTHATWDDLINVSVQLRLNKKWDPIVLMSC-------------  120 (352)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~~----------~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-------------  120 (352)
                      .++..+...|...|++++|...|++..          .....+..+...+...|+.+.+...+....             
T Consensus        48 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  127 (406)
T 3sf4_A           48 AIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEA  127 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchH
Confidence            467889999999999999998887541          124567777777877777666555443222             


Q ss_pred             -HHHHHHHHHHccCC--------------------HHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCCHHHHH
Q 045379          121 -VSILLIEAYGQKSL--------------------HKKAEFTYLELLDS----RCIP-TEDTYALLLKAYCMSGLLEKAE  174 (352)
Q Consensus       121 -~~~~li~~~~~~g~--------------------~~~a~~l~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~  174 (352)
                       ++..+...|...|+                    +++|.+.+.+..+.    +..| ...++..+...+...|++++|.
T Consensus       128 ~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  207 (406)
T 3sf4_A          128 RALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAV  207 (406)
T ss_dssp             HHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHH
T ss_pred             HHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHH
Confidence             78889999999999                    99999999877542    2112 2347888899999999999999


Q ss_pred             HHHHHHHHC----CCC-CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCCHHHHH
Q 045379          175 AVFREMRKY----GLP-PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC-QPS----TETYTLMINLYGKASKSFMAL  244 (352)
Q Consensus       175 ~~~~~m~~~----g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~g~~~~a~  244 (352)
                      ..+++..+.    +.. ....++..+...|...|++++|...+++..+... .++    ..++..+...|...|++++|.
T Consensus       208 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  287 (406)
T 3sf4_A          208 IAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAI  287 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHH
Confidence            999988653    111 1134788899999999999999999998765310 111    567888999999999999999


Q ss_pred             HHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          245 KLFNEMRSH----KCKP-NICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       245 ~l~~~m~~~----g~~p-~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      ..+++..+.    +-.+ ...++..+...|...|++++|.+.+++..+
T Consensus       288 ~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          288 DYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999987653    1111 145788889999999999999999998764

>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=99.05  E-value=2.8e-08  Score=82.41  Aligned_cols=185  Identities=11%  Similarity=0.004  Sum_probs=143.8

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 045379          152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMI  231 (352)
Q Consensus       152 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  231 (352)
                      .|+..+......+...|++++|...|++..+..-+++...+..+..++...|++++|...|++..+.. +.+..++..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            46788999999999999999999999999987644777888889999999999999999999998863 33567899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHH
Q 045379          232 NLYGKASKSFMALKLFNEMRSHKCKPNI-------CTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPD---VYAYNALM  301 (352)
Q Consensus       232 ~~~~~~g~~~~a~~l~~~m~~~g~~p~~-------~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~---~~~~~~li  301 (352)
                      .+|...|++++|++.+++..+.. +.+.       ..|..+-..+...|++++|.+.|++..+.  .|+   ...+..+-
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            99999999999999999998753 2234       45788888899999999999999999865  565   34444444


Q ss_pred             HHHH-----HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          302 EAYR-----LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       302 ~a~~-----~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .++.     .++.+..-...+...|....  ....|.+++|+.+|.
T Consensus       161 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~  204 (228)
T 4i17_A          161 VLFYNNGADVLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLG  204 (228)
T ss_dssp             HHHHHHHHHHHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHH
Confidence            4444     34555323344555555544  344566899998886

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.03  E-value=1.4e-08  Score=91.23  Aligned_cols=216  Identities=12%  Similarity=0.022  Sum_probs=141.1

Q ss_pred             HHHHHHhcCCHHHHHHHhcCCC------C----chhhHHHHHHHHHHHhhccCcchhhHH---------------hHHHH
Q 045379           69 ILRFVQREVDSNTIWDAFDSLP------P----THATWDDLINVSVQLRLNKKWDPIVLM---------------SCVSI  123 (352)
Q Consensus        69 l~~~~~~~g~~~~A~~~~~~~~------~----~~~~~~~l~~~~~~~~~~~~~~~~~~~---------------~~~~~  123 (352)
                      ....+...|++++|...|++..      +    ....+..+..++...++...+...+..               ..+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            3445568899999988886532      1    234566666666666555443332221               12677


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCCHHHHHH
Q 045379          124 LLIEAYGQKSLHKKAEFTYLELLDS----RCIP-TEDTYALLLKAYCMSGLLEKAEAVFREMRKY----GLPPSAVVYNS  194 (352)
Q Consensus       124 ~li~~~~~~g~~~~a~~l~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~~~~~~~~~  194 (352)
                      .+...|...|++++|.+.|.+..+.    +..+ ...++..+..+|...|++++|...+++..+.    +.+....++..
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  266 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHH
Confidence            7888888888888888888777642    1111 2346777788888888888888888877651    22333667778


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCC-HHHHHHHH
Q 045379          195 YIDGLLKGGNPQKAVEIFQRMKRDC----CQPSTETYTLMINLYGKASK---SFMALKLFNEMRSHKCKPN-ICTYTALV  266 (352)
Q Consensus       195 li~~~~~~g~~~~a~~~~~~m~~~~----~~~~~~~~~~li~~~~~~g~---~~~a~~l~~~m~~~g~~p~-~~t~~~li  266 (352)
                      +...|.+.|++++|...+++..+..    -+.....++.+-..|...++   +++|+..+++.   +..|+ ...+..+.
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la  343 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARSAA  343 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHHHH
Confidence            8888888888888888888776531    12223456666667777777   66666666652   22222 23566777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 045379          267 NAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       267 ~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      ..|...|++++|...|++..+
T Consensus       344 ~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          344 AVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            888888888888888887753

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.02  E-value=2.7e-07  Score=79.50  Aligned_cols=204  Identities=16%  Similarity=0.090  Sum_probs=142.9

Q ss_pred             HhcCCHHHHHHHhcCCCC-chh-hHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 045379           74 QREVDSNTIWDAFDSLPP-THA-TWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCI  151 (352)
Q Consensus        74 ~~~g~~~~A~~~~~~~~~-~~~-~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~  151 (352)
                      .-.|.+..++.-..++.+ +.. .---+.+++...|+......-.........+.. |...+    |...|++..+.+ .
T Consensus        24 fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~~~~~~~~~a~~~la~-~~~~~----a~~~l~~l~~~~-~   97 (310)
T 3mv2_B           24 YYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQDPTSKLGKVLDLYVQ-FLDTK----NIEELENLLKDK-Q   97 (310)
T ss_dssp             HTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCCCSSSTTHHHHHHHHH-HHTTT----CCHHHHHTTTTS-C
T ss_pred             HHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccCCCCCHHHHHHHHHHH-Hhccc----HHHHHHHHHhcC-C
Confidence            345888888776666542 211 222234667777765432211111112233333 33332    778888887665 4


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC-----CHH
Q 045379          152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGL-PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQP-----STE  225 (352)
Q Consensus       152 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-----~~~  225 (352)
                      ++..++..+..++...|++++|++++.+....+- .-+...+..++..+.+.|+.+.|.+.+++|.+.  .|     +..
T Consensus        98 ~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~  175 (310)
T 3mv2_B           98 NSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNE  175 (310)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchH
Confidence            6677777888999999999999999999876653 246788889999999999999999999999886  56     356


Q ss_pred             HHHHHHHHHH--hcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          226 TYTLMINLYG--KAS--KSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       226 ~~~~li~~~~--~~g--~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      +...|..++.  ..|  ++++|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+
T Consensus       176 ~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          176 MILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6666776633  334  899999999999765  46644455556689999999999999997654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.99  E-value=2.2e-08  Score=86.69  Aligned_cols=168  Identities=12%  Similarity=0.045  Sum_probs=131.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-CHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDS----RCIPT-EDTYALLLKAYCMSGLLEKAEAVFREMRKY----GLPP-SAV  190 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~----~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~~-~~~  190 (352)
                      .|+.....|...|++++|.+.|.+..+.    |-++. ..+|+.+..+|...|++++|...+++..+.    |-.. ...
T Consensus        39 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  118 (292)
T 1qqe_A           39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (292)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            5666677888999999999999887653    32222 468999999999999999999999887653    2111 145


Q ss_pred             HHHHHHHHHHcC-CCHHHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-----
Q 045379          191 VYNSYIDGLLKG-GNPQKAVEIFQRMKRDCCQ-PS----TETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNI-----  259 (352)
Q Consensus       191 ~~~~li~~~~~~-g~~~~a~~~~~~m~~~~~~-~~----~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~-----  259 (352)
                      +++.+...|... |++++|...|++..+..-. .+    ..+++.+...+.+.|++++|+..|++..+.......     
T Consensus       119 ~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  198 (292)
T 1qqe_A          119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (292)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHH
Confidence            788999999996 9999999999987653110 01    357889999999999999999999999875432221     


Q ss_pred             -HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          260 -CTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       260 -~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                       ..|..+..++...|++++|...|++..+.
T Consensus       199 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l  228 (292)
T 1qqe_A          199 KDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence             25778888999999999999999998753

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.98  E-value=6.9e-08  Score=83.52  Aligned_cols=204  Identities=11%  Similarity=0.002  Sum_probs=145.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLE  144 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~  144 (352)
                      .++.....|...|++++|...|++.          +..+.+.++      ......+|+.+...|.+.|++++|+..|++
T Consensus        39 ~~~~a~~~~~~~g~~~~A~~~~~~a----------l~~~~~~~~------~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~  102 (292)
T 1qqe_A           39 LCVQAATIYRLRKELNLAGDSFLKA----------ADYQKKAGN------EDEAGNTYVEAYKCFKSGGNSVNAVDSLEN  102 (292)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHH----------HHHHHHTTC------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH----------HHHHHHhCC------HHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5666677888889999888877643          122211111      111122788899999999999999999988


Q ss_pred             HHhCC----CCC-CHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHcCCCHHHHHHHHH
Q 045379          145 LLDSR----CIP-TEDTYALLLKAYCMS-GLLEKAEAVFREMRKY----GLPPS-AVVYNSYIDGLLKGGNPQKAVEIFQ  213 (352)
Q Consensus       145 m~~~~----~~p-~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~----g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~  213 (352)
                      ..+..    -.+ -..+++.+..+|... |++++|...|++..+.    +..+. ..+++.+...|.+.|++++|...|+
T Consensus       103 Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~  182 (292)
T 1qqe_A          103 AIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYS  182 (292)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            87532    111 145888999999996 9999999999998753    11111 3568889999999999999999999


Q ss_pred             HHHHcCCCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHH--hcCCHHHHH
Q 045379          214 RMKRDCCQPST------ETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNI------CTYTALVNAFA--REGLCEEAE  279 (352)
Q Consensus       214 ~m~~~~~~~~~------~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~------~t~~~li~~~~--~~g~~~~a~  279 (352)
                      +..+.......      ..+..+..++...|++++|...|++..+.  .|+.      ..+..++.+|.  ..+++++|.
T Consensus       183 ~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~  260 (292)
T 1qqe_A          183 KLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHC  260 (292)
T ss_dssp             HHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHH
T ss_pred             HHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99886432221      26778888999999999999999998763  2332      23455666665  456788888


Q ss_pred             HHHHHHH
Q 045379          280 EIFEQLQ  286 (352)
Q Consensus       280 ~l~~~m~  286 (352)
                      ..|+++.
T Consensus       261 ~~~~~~~  267 (292)
T 1qqe_A          261 KEFDNFM  267 (292)
T ss_dssp             HHHTTSS
T ss_pred             HHhccCC
Confidence            8887764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.97  E-value=1.5e-07  Score=88.57  Aligned_cols=164  Identities=12%  Similarity=0.062  Sum_probs=131.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-H-HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH-
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT-E-DTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYID-  197 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~-  197 (352)
                      .|..++..+.+.|++++|.++|++..+..  |+ . ..|...+..+.+.|++++|.++|++..+.. +.+...|-.... 
T Consensus       323 l~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~  399 (530)
T 2ooe_A          323 LYFAYADYEESRMKYEKVHSIYNRLLAIE--DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALM  399 (530)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHSS--SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhCcc--ccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHH
Confidence            66777788888999999999999999853  43 3 589999999999999999999999998763 223333332222 


Q ss_pred             HHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCC--HHHHHHHHHHHHhcCC
Q 045379          198 GLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHK-CKPN--ICTYTALVNAFAREGL  274 (352)
Q Consensus       198 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g-~~p~--~~t~~~li~~~~~~g~  274 (352)
                      .+...|++++|..+|++..+.. +.+...|..++..+.+.|+.++|..+|++....+ ..|+  ...|...+......|+
T Consensus       400 ~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~  478 (530)
T 2ooe_A          400 EYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGD  478 (530)
T ss_dssp             HHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSC
T ss_pred             HHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCC
Confidence            2346899999999999988763 3468899999999999999999999999998763 2332  4578888888889999


Q ss_pred             HHHHHHHHHHHHHC
Q 045379          275 CEEAEEIFEQLQGA  288 (352)
Q Consensus       275 ~~~a~~l~~~m~~~  288 (352)
                      .+.+..++.++.+.
T Consensus       479 ~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          479 LASILKVEKRRFTA  492 (530)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999998754

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.96  E-value=1.4e-07  Score=81.31  Aligned_cols=182  Identities=13%  Similarity=0.074  Sum_probs=136.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-----CHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCI-PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPP-----SAVVYNS  194 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~-----~~~~~~~  194 (352)
                      +...+..++...|++++|++++.+....+.. -+...+..++..+.+.|+.+.|.+.++.|.+.  .|     +..+...
T Consensus       102 ~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~  179 (310)
T 3mv2_B          102 ELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILN  179 (310)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHH
Confidence            4456778888999999999999998776642 35668899999999999999999999999875  45     3555566


Q ss_pred             HHHHHH----cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC----CCCHHH
Q 045379          195 YIDGLL----KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH-----KC----KPNICT  261 (352)
Q Consensus       195 li~~~~----~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~-----g~----~p~~~t  261 (352)
                      +..++.    ..+++++|..+|+++.+.  .|+..+-..+++++.+.|++++|++.++.+.+.     +.    +-+..+
T Consensus       180 Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~  257 (310)
T 3mv2_B          180 LAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTF  257 (310)
T ss_dssp             HHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHH
T ss_pred             HHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHH
Confidence            665532    244899999999999776  466455566666999999999999999976542     11    346667


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH
Q 045379          262 YTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRM  310 (352)
Q Consensus       262 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m  310 (352)
                      ...+|......|+  +|.+++.++.+.  .|+......+-..-..|+++
T Consensus       258 LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~hp~i~d~~~k~~~Fd~~  302 (310)
T 3mv2_B          258 LANQITLALMQGL--DTEDLTNQLVKL--DHEHAFIKHHQEIDAKFDEL  302 (310)
T ss_dssp             HHHHHHHHHHTTC--TTHHHHHHHHHT--TCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCh--HHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHH
Confidence            7677777777787  899999999876  56654444444444455555

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.90  E-value=1.3e-07  Score=80.05  Aligned_cols=167  Identities=13%  Similarity=0.038  Sum_probs=130.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC-C-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIP-T-EDTYALLLKAYCMSGLLEKAEAVFREMRKYG--LPPSAVVYNSYI  196 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~~~~~~~~~li  196 (352)
                      .+-.+...+.+.|++++|.+.|+++.+..... . ...+..+..++...|++++|...|++..+..  .+.....+..+.
T Consensus        17 ~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg   96 (261)
T 3qky_A           17 EAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERA   96 (261)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHH
Confidence            44556677889999999999999999765321 1 6788999999999999999999999998852  222356677788


Q ss_pred             HHHHc--------CCCHHHHHHHHHHHHHcCCCCCHHHH-----------------HHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          197 DGLLK--------GGNPQKAVEIFQRMKRDCCQPSTETY-----------------TLMINLYGKASKSFMALKLFNEMR  251 (352)
Q Consensus       197 ~~~~~--------~g~~~~a~~~~~~m~~~~~~~~~~~~-----------------~~li~~~~~~g~~~~a~~l~~~m~  251 (352)
                      .++..        .|++++|...|++..+.. +.+....                 ..+...|.+.|++++|+..|++..
T Consensus        97 ~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l  175 (261)
T 3qky_A           97 MCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVF  175 (261)
T ss_dssp             HHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            88888        999999999999998763 1122233                 456788999999999999999998


Q ss_pred             hCCCC-C-CHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHC
Q 045379          252 SHKCK-P-NICTYTALVNAFARE----------GLCEEAEEIFEQLQGA  288 (352)
Q Consensus       252 ~~g~~-p-~~~t~~~li~~~~~~----------g~~~~a~~l~~~m~~~  288 (352)
                      +..-. + ....+..+..+|...          |++++|...|+++.+.
T Consensus       176 ~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          176 DAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            75211 1 245677888888866          8999999999999865

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.89  E-value=1.3e-07  Score=77.43  Aligned_cols=166  Identities=12%  Similarity=0.088  Sum_probs=126.5

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCC-HHHHHH----------------HHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 045379          125 LIEAYGQKSLHKKAEFTYLELLDSRCIPT-EDTYAL----------------LLKAYCMSGLLEKAEAVFREMRKYGLPP  187 (352)
Q Consensus       125 li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~~~~~----------------li~~~~~~g~~~~a~~~~~~m~~~g~~~  187 (352)
                      ....+.+.|++++|...|++..+..  |+ ...|..                +..++.+.|++++|...|++..+.. +.
T Consensus        10 ~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~   86 (208)
T 3urz_A           10 KVSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PN   86 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CC
Confidence            3456778999999999999998754  43 446666                8889999999999999999998864 45


Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH--HHHHHHHHHHHhCCCCCCHH--HHH
Q 045379          188 SAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKS--FMALKLFNEMRSHKCKPNIC--TYT  263 (352)
Q Consensus       188 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~--~~a~~l~~~m~~~g~~p~~~--t~~  263 (352)
                      +...+..+...|...|++++|...|++..+.. +.+..++..+...|...|+.  +.+...++...    .|+..  .+.
T Consensus        87 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~a~~  161 (208)
T 3urz_A           87 NVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS----SPTKMQYARY  161 (208)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC-------CCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh----CCCchhHHHH
Confidence            78899999999999999999999999998874 44678888888888766543  44555555543    34433  344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 045379          264 ALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNAL  300 (352)
Q Consensus       264 ~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~l  300 (352)
                      ..-.++...|++++|...|++..+.  .|+......+
T Consensus       162 ~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l  196 (208)
T 3urz_A          162 RDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence            4556677789999999999999864  6776554443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.85  E-value=1.7e-07  Score=88.87  Aligned_cols=153  Identities=8%  Similarity=-0.052  Sum_probs=96.3

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 045379          132 KSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEI  211 (352)
Q Consensus       132 ~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  211 (352)
                      .|++++|.+.|++..+... -+...+..+...+...|++++|.+.+++..+.. +.+...+..+...|...|++++|.+.
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            3667777777777765432 246677777777777788888888887777653 34566777777777788888888888


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHC
Q 045379          212 FQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFARE---GLCEEAEEIFEQLQGA  288 (352)
Q Consensus       212 ~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~---g~~~~a~~l~~~m~~~  288 (352)
                      |++..+.. +.+...+..+..+|.+.|++++|.+.+++..+.. +.+...+..+...+...   |+.++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            87777653 3356677777777788888888888877776542 23456677777777777   7788888877777654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.84  E-value=4.9e-07  Score=80.66  Aligned_cols=223  Identities=6%  Similarity=-0.049  Sum_probs=157.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC------Cch----hhHHHHHHHHHHHhhccCcchhhHH----------------
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP------PTH----ATWDDLINVSVQLRLNKKWDPIVLM----------------  118 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~----~~~~~l~~~~~~~~~~~~~~~~~~~----------------  118 (352)
                      +.+.+...|...|++++|...+++..      .+.    .++..+...+...|+...+...+..                
T Consensus        55 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~  134 (373)
T 1hz4_A           55 ATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMH  134 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHH
Confidence            55777888889999999998887642      121    2244555566666665544433322                


Q ss_pred             hHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHH
Q 045379          119 SCVSILLIEAYGQKSLHKKAEFTYLELLDSRCI----PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPP--SAVVY  192 (352)
Q Consensus       119 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~----p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~--~~~~~  192 (352)
                      ..++..+...+...|++++|.+.+++..+....    ....++..+...+...|++++|...+++.....-.+  .....
T Consensus       135 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~  214 (373)
T 1hz4_A          135 EFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWI  214 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHH
Confidence            115667888899999999999999988753221    134578888899999999999999999886531111  11222


Q ss_pred             H----HHHHHHHcCCCHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCCH-H
Q 045379          193 N----SYIDGLLKGGNPQKAVEIFQRMKRDCCQP---STETYTLMINLYGKASKSFMALKLFNEMRS----HKCKPNI-C  260 (352)
Q Consensus       193 ~----~li~~~~~~g~~~~a~~~~~~m~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~l~~~m~~----~g~~p~~-~  260 (352)
                      .    ..+..+...|++++|...+++..+....+   ....+..+...+...|++++|...+++...    .|..++. .
T Consensus       215 ~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~  294 (373)
T 1hz4_A          215 SNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNR  294 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHH
Confidence            1    23345789999999999999887643211   133567788999999999999999988754    2322233 2


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          261 TYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       261 t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      .+..+..++...|+.++|...+.+..+
T Consensus       295 ~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          295 NLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            666777888999999999999998764

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.84  E-value=3.3e-07  Score=75.88  Aligned_cols=164  Identities=15%  Similarity=0.105  Sum_probs=124.1

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCH-HHHHHHHH
Q 045379          122 SILLIEAYGQKSLHKKAEFTYLELLDSRCI-PT-EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLP-PSA-VVYNSYID  197 (352)
Q Consensus       122 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~-p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~~-~~~~~li~  197 (352)
                      +..+...+.+.|++++|.+.|+++.+.... |. ...+..+..++.+.|++++|...|+++.+..-. +.. ..+-.+..
T Consensus         7 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~   86 (225)
T 2yhc_A            7 IYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGL   86 (225)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHH
Confidence            445567788999999999999999975432 22 468888999999999999999999999875321 111 23333344


Q ss_pred             HHH------------------cCCCHHHHHHHHHHHHHcCCCCC-HHHH-----------------HHHHHHHHhcCCHH
Q 045379          198 GLL------------------KGGNPQKAVEIFQRMKRDCCQPS-TETY-----------------TLMINLYGKASKSF  241 (352)
Q Consensus       198 ~~~------------------~~g~~~~a~~~~~~m~~~~~~~~-~~~~-----------------~~li~~~~~~g~~~  241 (352)
                      ++.                  ..|++++|...|+++.+.  .|+ ..++                 -.+...|.+.|+++
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~  164 (225)
T 2yhc_A           87 TNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWV  164 (225)
T ss_dssp             HHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHH
Confidence            443                  367899999999999876  233 2222                 24556788999999


Q ss_pred             HHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 045379          242 MALKLFNEMRSHKCKPN----ICTYTALVNAFAREGLCEEAEEIFEQLQGAG  289 (352)
Q Consensus       242 ~a~~l~~~m~~~g~~p~----~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~  289 (352)
                      +|+..|+++.+.  -|+    ...+..+..+|.+.|+.++|.+.++.+...+
T Consensus       165 ~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          165 AVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            999999999875  243    2568889999999999999999999998763

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.81  E-value=8.7e-08  Score=76.14  Aligned_cols=161  Identities=9%  Similarity=-0.005  Sum_probs=123.8

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHc
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDG-LLK  201 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~  201 (352)
                      ..+...+.+.|++++|...|++..+... -+...+..+..++...|++++|...++...+..  |+...+..+... +..
T Consensus        10 ~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A           10 LKQVSELLQQGEHAQALNVIQTLSDELQ-SRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCHHHH-TSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHh
Confidence            4456778899999999999998876432 367789999999999999999999999886653  344433332211 222


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 045379          202 GGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKP-NICTYTALVNAFAREGLCEEAEE  280 (352)
Q Consensus       202 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~  280 (352)
                      .+....|...+++..+.. +-+...+..+...+...|++++|...|++..+..-.+ +...+..+...+...|+.++|..
T Consensus        87 ~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           87 QAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             HHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             hcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            233345788898888763 3368899999999999999999999999998764322 35689999999999999999999


Q ss_pred             HHHHHHH
Q 045379          281 IFEQLQG  287 (352)
Q Consensus       281 l~~~m~~  287 (352)
                      .|++...
T Consensus       166 ~y~~al~  172 (176)
T 2r5s_A          166 KYRRQLY  172 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9987653

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.76  E-value=2.5e-06  Score=78.56  Aligned_cols=265  Identities=12%  Similarity=0.055  Sum_probs=181.2

Q ss_pred             hHHHHHHHHHhcC-----CHHHHHHHhcCCC--CchhhHHHHHHHHHHHhhccCcchhhHHhH---------HHHHHHHH
Q 045379           65 TAQQILRFVQREV-----DSNTIWDAFDSLP--PTHATWDDLINVSVQLRLNKKWDPIVLMSC---------VSILLIEA  128 (352)
Q Consensus        65 ~~~~l~~~~~~~g-----~~~~A~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---------~~~~li~~  128 (352)
                      .+..|...+...|     ++++|...|++..  .+...+..+...|...+........+....         .+..|...
T Consensus        71 A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~  150 (452)
T 3e4b_A           71 AQARLGRLLAAKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLL  150 (452)
T ss_dssp             CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5667777455554     7889998887653  455678888888887776555544444333         67777888


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC---
Q 045379          129 YGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSG---LLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKG---  202 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~---  202 (352)
                      |...+.++++......+.+.-...++..+..+...|...|   +.++|.+.|++..+.|. ++...+..+-..|...   
T Consensus       151 y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~  229 (452)
T 3e4b_A          151 YRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLG  229 (452)
T ss_dssp             HHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGS
T ss_pred             HHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCC
Confidence            8888865555554333332212233338888888999999   89999999999998874 5555556677777554   


Q ss_pred             -CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-H--HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-----
Q 045379          203 -GNPQKAVEIFQRMKRDCCQPSTETYTLMINL-Y--GKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREG-----  273 (352)
Q Consensus       203 -g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~--~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g-----  273 (352)
                       +++++|...|++.. .|   +...+..|-.. |  ...+++++|++.|++..+.|   +...+..|-..|. .|     
T Consensus       230 ~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~  301 (452)
T 3e4b_A          230 TPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPA  301 (452)
T ss_dssp             SCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCC
T ss_pred             CCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCC
Confidence             68999999999987 43   55666666666 4  56899999999999998876   6777888888887 55     


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH--------------HHHHH-hcCCCCCHHHHHHHHHHHHH----cCCc
Q 045379          274 LCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR--------------LISRM-HMGCEPDRASYNIMVDAYGR----AGLH  334 (352)
Q Consensus       274 ~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~--------------~~~~m-~~~~~p~~~~~~~li~a~~~----~g~~  334 (352)
                      ++++|.+.|++.. .|   +......+-..|.              .|+.. +.|   +......|...|..    ..+.
T Consensus       302 d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~  374 (452)
T 3e4b_A          302 DAKAAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDP  374 (452)
T ss_dssp             CHHHHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCH
T ss_pred             CHHHHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCH
Confidence            9999999999887 33   3444444433332              44444 433   33445566666654    4478


Q ss_pred             chhHHHHHHHh
Q 045379          335 EGKCSYSLVEL  345 (352)
Q Consensus       335 ~~A~~~~~~~~  345 (352)
                      ++|..+|...-
T Consensus       375 ~~A~~~~~~A~  385 (452)
T 3e4b_A          375 LNAYVFSQLAK  385 (452)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            88888876443

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.76  E-value=1.1e-07  Score=92.35  Aligned_cols=157  Identities=11%  Similarity=-0.038  Sum_probs=134.7

Q ss_pred             HccCCHHHHHHHHHHHH--------hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 045379          130 GQKSLHKKAEFTYLELL--------DSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK  201 (352)
Q Consensus       130 ~~~g~~~~a~~l~~~m~--------~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  201 (352)
                      ...|++++|++.+++..        +.. +.+...+..+..++...|++++|.+.|++..+.. +.+...+..+..+|..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            67899999999999998        322 3466789999999999999999999999998763 4567889999999999


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 045379          202 GGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEI  281 (352)
Q Consensus       202 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l  281 (352)
                      .|++++|...|++..+.. +-+...+..+..+|.+.|++++ ++.|++..+.. +-+...|..+..++.+.|++++|.+.
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999998864 3367889999999999999999 99999988753 34677899999999999999999999


Q ss_pred             HHHHHHCCCCCC
Q 045379          282 FEQLQGAGIEPD  293 (352)
Q Consensus       282 ~~~m~~~~~~p~  293 (352)
                      |++..+.  .|+
T Consensus       557 ~~~al~l--~P~  566 (681)
T 2pzi_A          557 LDEVPPT--SRH  566 (681)
T ss_dssp             HHTSCTT--STT
T ss_pred             HHhhccc--Ccc
Confidence            9988754  454

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.76  E-value=4.2e-07  Score=78.35  Aligned_cols=164  Identities=10%  Similarity=0.035  Sum_probs=107.1

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHH-H
Q 045379          152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTL-M  230 (352)
Q Consensus       152 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~-l  230 (352)
                      .+...+..+...+.+.|++++|...|++..+.. +.+...+..+...+.+.|++++|...+++....  .|+...... .
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~  191 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVA  191 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHH
Confidence            344566667777777777888877777776653 345567777777777778888887777777654  344433222 2


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH
Q 045379          231 INLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRM  310 (352)
Q Consensus       231 i~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m  310 (352)
                      ...+...++.++|+..+++..... +.+...+..+...+...|++++|...|.++.+.  .|+                 
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~--~p~-----------------  251 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRX--DLT-----------------  251 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT-----------------
T ss_pred             HHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--ccc-----------------
Confidence            233556666677777777766542 345667777777777778888887777777654  121                 


Q ss_pred             hcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          311 HMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       311 ~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                          ..+...+..++..|...|+.++|...|.
T Consensus       252 ----~~~~~a~~~l~~~~~~~g~~~~a~~~~r  279 (287)
T 3qou_A          252 ----AADGQTRXTFQEILAALGTGDALASXYR  279 (287)
T ss_dssp             ----GGGGHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             ----cccchHHHHHHHHHHHcCCCCcHHHHHH
Confidence                1125566777777777777777776654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.75  E-value=2.5e-07  Score=79.78  Aligned_cols=162  Identities=12%  Similarity=-0.004  Sum_probs=132.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYN-SYIDGL  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~-~li~~~  199 (352)
                      .+..+...+.+.|++++|.+.|++..+... -+...+..+...+.+.|++++|...+++.....  |+..... .....+
T Consensus       119 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~~~l  195 (287)
T 3qou_A          119 LXAQQAMQLMQESNYTDALPLLXDAWQLSN-QNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQIEL  195 (287)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-SCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHHHHH
Confidence            566778889999999999999999987553 267789999999999999999999999987653  4443333 233346


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHH
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCK-PNICTYTALVNAFAREGLCEEA  278 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~-p~~~t~~~li~~~~~~g~~~~a  278 (352)
                      .+.++.++|...+++..+.. +.+...+..+...+...|++++|+..|+++.+..-. .+...+..+...+...|+.++|
T Consensus       196 ~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a  274 (287)
T 3qou_A          196 LXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDAL  274 (287)
T ss_dssp             HHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHH
T ss_pred             HhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcH
Confidence            67788888999999988764 457889999999999999999999999999876321 1267899999999999999999


Q ss_pred             HHHHHHHH
Q 045379          279 EEIFEQLQ  286 (352)
Q Consensus       279 ~~l~~~m~  286 (352)
                      ...|++..
T Consensus       275 ~~~~r~al  282 (287)
T 3qou_A          275 ASXYRRQL  282 (287)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.75  E-value=6.4e-07  Score=75.79  Aligned_cols=134  Identities=15%  Similarity=0.111  Sum_probs=108.9

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC--CCCHHH
Q 045379          152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS---AVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC--QPSTET  226 (352)
Q Consensus       152 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~  226 (352)
                      .+...+......+.+.|++++|...|+++.+.. +.+   ...+..+..+|.+.|++++|...|++..+..-  +....+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            466788888899999999999999999998863 223   67888899999999999999999999988621  122456


Q ss_pred             HHHHHHHHHh--------cCCHHHHHHHHHHHHhCCCCCC-HHHH-----------------HHHHHHHHhcCCHHHHHH
Q 045379          227 YTLMINLYGK--------ASKSFMALKLFNEMRSHKCKPN-ICTY-----------------TALVNAFAREGLCEEAEE  280 (352)
Q Consensus       227 ~~~li~~~~~--------~g~~~~a~~l~~~m~~~g~~p~-~~t~-----------------~~li~~~~~~g~~~~a~~  280 (352)
                      +..+..++..        .|++++|+..|++..+..  |+ ....                 ..+...|.+.|++++|..
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  169 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAV  169 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            7788888888        999999999999998752  32 2222                 556788999999999999


Q ss_pred             HHHHHHHC
Q 045379          281 IFEQLQGA  288 (352)
Q Consensus       281 l~~~m~~~  288 (352)
                      .|+++.+.
T Consensus       170 ~~~~~l~~  177 (261)
T 3qky_A          170 TYEAVFDA  177 (261)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999864

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.75  E-value=4.3e-07  Score=78.44  Aligned_cols=167  Identities=9%  Similarity=-0.065  Sum_probs=127.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCC-CCCHH----HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CC----HH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRC-IPTED----TYALLLKAYCMSGLLEKAEAVFREMRKYGLP-PS----AV  190 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~-~p~~~----~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~----~~  190 (352)
                      .+...+..+...|++++|.+++++..+... .|+..    .+..+...+...|++++|...+++..+.... ++    ..
T Consensus        77 ~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~  156 (293)
T 3u3w_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHH
Confidence            344457788999999999999999986432 23322    3334666777788999999999999874322 22    34


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHH----c-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCC-H
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRMKR----D-CCQP-STETYTLMINLYGKASKSFMALKLFNEMRS----HKCKPN-I  259 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m~~----~-~~~~-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~----~g~~p~-~  259 (352)
                      +++.+...|...|++++|...|++..+    . +..+ ...++..+...|.+.|++++|.+.+++..+    .+..+. .
T Consensus       157 ~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~  236 (293)
T 3u3w_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHH
Confidence            799999999999999999999999874    1 1112 234788999999999999999999988754    232333 5


Q ss_pred             HHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 045379          260 CTYTALVNAFAREG-LCEEAEEIFEQLQG  287 (352)
Q Consensus       260 ~t~~~li~~~~~~g-~~~~a~~l~~~m~~  287 (352)
                      .+|..+..+|.+.| .+++|.+.+++...
T Consensus       237 ~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            78999999999999 47999999988753

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.74  E-value=1.1e-06  Score=71.54  Aligned_cols=128  Identities=13%  Similarity=-0.059  Sum_probs=101.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .+..+...+...|++++|.+.|++..    .|+...+..+..++...|++++|...+++..+.. +.+...+..+..+|.
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            34556677888899999999888774    4688889999999999999999999998887764 456778888888899


Q ss_pred             cCCCHHHHHHHHHHHHHcCCC--------------C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQ--------------P-STETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~--------------~-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      ..|++++|...|++..+..-.              | ....+..+..+|...|++++|.+.|++..+.
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            999999999999888774211              1 2267788888888888888888888888765

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.72  E-value=1.6e-06  Score=70.64  Aligned_cols=129  Identities=14%  Similarity=-0.038  Sum_probs=111.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYG  235 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  235 (352)
                      .+..+...+...|++++|...|++.    +.|+...+..+...|...|++++|...|++..+.. +.+...+..+..+|.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            4556677888999999999999877    46688999999999999999999999999988764 457889999999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCC--------------C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 045379          236 KASKSFMALKLFNEMRSHKCK--------------P-NICTYTALVNAFAREGLCEEAEEIFEQLQGAG  289 (352)
Q Consensus       236 ~~g~~~~a~~l~~~m~~~g~~--------------p-~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~  289 (352)
                      ..|++++|++.|++..+..-.              | ....+..+..+|.+.|++++|.+.|++..+..
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            999999999999999875311              1 23678899999999999999999999998763

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.71  E-value=6.2e-07  Score=71.12  Aligned_cols=161  Identities=7%  Similarity=0.011  Sum_probs=119.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC-CchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP-PTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYL  143 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~  143 (352)
                      ....+...+...|++++|...|++.. .++....                       .|..+...+.+.|++++|.+.|+
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~-----------------------a~~~la~~~~~~g~~~~A~~~~~   64 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQSRGD-----------------------VKLAKADCLLETKQFELAQELLA   64 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHH-----------------------HHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHH-----------------------HHHHHHHHHHHCCCHHHHHHHHH
Confidence            45567778889999999999999875 1111111                       55667778889999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHH-HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC
Q 045379          144 ELLDSRCIPTEDTYALLLKA-YCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQP  222 (352)
Q Consensus       144 ~m~~~~~~p~~~~~~~li~~-~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  222 (352)
                      ......  |+...+...... +...+....|...+++..+.. +.+...+..+...+...|++++|...|++..+..-.+
T Consensus        65 ~a~~~~--p~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~  141 (176)
T 2r5s_A           65 TIPLEY--QDNSYKSLIAKLELHQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGA  141 (176)
T ss_dssp             TCCGGG--CCHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTT
T ss_pred             Hhhhcc--CChHHHHHHHHHHHHhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCccc
Confidence            887654  354433332222 223333445788888887753 3467889999999999999999999999998874322


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          223 -STETYTLMINLYGKASKSFMALKLFNEMR  251 (352)
Q Consensus       223 -~~~~~~~li~~~~~~g~~~~a~~l~~~m~  251 (352)
                       +...+..+...+...|+.++|...|++..
T Consensus       142 ~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          142 QDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             TTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence             35689999999999999999999998765

>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=98.71  E-value=5.2e-06  Score=68.00  Aligned_cols=143  Identities=13%  Similarity=0.087  Sum_probs=120.4

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC----CHHHHHHH
Q 045379          136 KKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGG----NPQKAVEI  211 (352)
Q Consensus       136 ~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g----~~~~a~~~  211 (352)
                      .+|.+.|.+..+.|   ++.++..+-..|...+++++|.+.|++..+.|   +...+..|-..|.. +    ++++|...
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            35778888888764   78889999999999999999999999999876   55777788888887 6    89999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh----cCCHHHHHHHH
Q 045379          212 FQRMKRDCCQPSTETYTLMINLYGK----ASKSFMALKLFNEMRSHKCK-PNICTYTALVNAFAR----EGLCEEAEEIF  282 (352)
Q Consensus       212 ~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~g~~-p~~~t~~~li~~~~~----~g~~~~a~~l~  282 (352)
                      |++..+.|   +..++..|-..|..    .+++++|++.|++..+.|.. .+...+..|-..|..    .+++++|...|
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            99998865   67788888888887    89999999999999887521 126788888889988    88999999999


Q ss_pred             HHHHHC
Q 045379          283 EQLQGA  288 (352)
Q Consensus       283 ~~m~~~  288 (352)
                      ++..+.
T Consensus       153 ~~A~~~  158 (212)
T 3rjv_A          153 KGSSSL  158 (212)
T ss_dssp             HHHHHT
T ss_pred             HHHHHc
Confidence            999876

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.70  E-value=1e-07  Score=73.71  Aligned_cols=144  Identities=12%  Similarity=-0.075  Sum_probs=103.6

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC
Q 045379          126 IEAYGQKSLHKKAEFTYLELLDSRCIPT-EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGN  204 (352)
Q Consensus       126 i~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  204 (352)
                      ...+...|++++|+..+.......  |+ ...+..+...|.+.|++++|.+.|++..+.. +-+..+|..+..+|.+.|+
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~~--p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPSP--RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCSH--HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcChHHHHHHHHHHhcccC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCc
Confidence            345566788888888888776532  32 3356678888889999999999998888763 4567888888889999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH-HHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 045379          205 PQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKL-FNEMRSHKCKPNICTYTALVNAFAREGL  274 (352)
Q Consensus       205 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l-~~~m~~~g~~p~~~t~~~li~~~~~~g~  274 (352)
                      +++|...|++..+.. +-+..++..+...|.+.|++++|.+. +++..+.. +-+..+|......+...|+
T Consensus        81 ~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           81 TDKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCCC
T ss_pred             hHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCc
Confidence            999999998888763 33577888888888888888766554 46665542 2355666666666666554

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.70  E-value=2.5e-06  Score=73.61  Aligned_cols=166  Identities=9%  Similarity=-0.044  Sum_probs=126.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH-----HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC---CCC--HH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTE-----DTYALLLKAYCMSGLLEKAEAVFREMRKYGL---PPS--AV  190 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~-----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~---~~~--~~  190 (352)
                      .+...+..+...|++++|.+.+.+..+.....+.     ..+..+...+...|++++|...+++..+...   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            5566778899999999999999988865432211     2344456667788999999999999875421   222  45


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHc-CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-H
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRMKRD-CCQPS-----TETYTLMINLYGKASKSFMALKLFNEMRSH----KCKPN-I  259 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~-----~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----g~~p~-~  259 (352)
                      +++.+...|...|++++|...|++..+. ...|+     ..+++.+...|...|++++|+..+++..+.    +.... .
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            8899999999999999999999988731 00122     268899999999999999999999987542    21222 5


Q ss_pred             HHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 045379          260 CTYTALVNAFAREGLCEEA-EEIFEQLQ  286 (352)
Q Consensus       260 ~t~~~li~~~~~~g~~~~a-~~l~~~m~  286 (352)
                      .+|..+...|.+.|++++| ...+++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            6789999999999999999 77787765

>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=98.69  E-value=3e-06  Score=69.41  Aligned_cols=161  Identities=15%  Similarity=0.073  Sum_probs=133.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC----CHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSG----LLEKAEAVFREMRKYGLPPSAVVYNSYI  196 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g----~~~~a~~~~~~m~~~g~~~~~~~~~~li  196 (352)
                      ++..|...|...+++++|.+.|++..+.|   ++..+..+-..|.. +    ++++|.+.|++..+.|   +...+..|-
T Consensus        20 a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg   92 (212)
T 3rjv_A           20 AQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLA   92 (212)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            56677778888999999999999999875   67788888888887 6    8999999999998876   567788888


Q ss_pred             HHHHc----CCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 045379          197 DGLLK----GGNPQKAVEIFQRMKRDCCQ-PSTETYTLMINLYGK----ASKSFMALKLFNEMRSHKCKPNICTYTALVN  267 (352)
Q Consensus       197 ~~~~~----~g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~  267 (352)
                      ..|..    .+++++|...|++..+.|.. .+..++..|-..|..    .+++++|+..|++..+.  ..+...+..|-.
T Consensus        93 ~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~Lg~  170 (212)
T 3rjv_A           93 RVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEYWAGM  170 (212)
T ss_dssp             HHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHHHHHH
T ss_pred             HHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHHHHHH
Confidence            88887    88999999999999987521 127888899999988    88999999999999876  234556777777


Q ss_pred             HHHhc-C-----CHHHHHHHHHHHHHCCC
Q 045379          268 AFARE-G-----LCEEAEEIFEQLQGAGI  290 (352)
Q Consensus       268 ~~~~~-g-----~~~~a~~l~~~m~~~~~  290 (352)
                      .|... |     +.++|...|++..+.|.
T Consensus       171 ~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          171 MFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            77654 3     89999999999988774

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.66  E-value=3.8e-07  Score=73.65  Aligned_cols=157  Identities=13%  Similarity=0.027  Sum_probs=116.4

Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHcCCC
Q 045379          130 GQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY----GLP-PSAVVYNSYIDGLLKGGN  204 (352)
Q Consensus       130 ~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~-~~~~~~~~li~~~~~~g~  204 (352)
                      ...|++++|.+.++.+.. .......++..+...+...|++++|...+++..+.    +.. ....++..+...|...|+
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            467999999996655543 22235668999999999999999999999988752    222 235678888899999999


Q ss_pred             HHHHHHHHHHHHHc----CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcC
Q 045379          205 PQKAVEIFQRMKRD----CCQP--STETYTLMINLYGKASKSFMALKLFNEMRSH----KCKP-NICTYTALVNAFAREG  273 (352)
Q Consensus       205 ~~~a~~~~~~m~~~----~~~~--~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----g~~p-~~~t~~~li~~~~~~g  273 (352)
                      +++|...+++..+.    +-.|  ...++..+...+...|++++|...+++....    +..+ -..++..+...+...|
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            99999999987653    2111  2456788899999999999999999987542    2111 1234678888999999


Q ss_pred             CHHHHHHHHHHHHH
Q 045379          274 LCEEAEEIFEQLQG  287 (352)
Q Consensus       274 ~~~~a~~l~~~m~~  287 (352)
                      ++++|.+.+++..+
T Consensus       162 ~~~~A~~~~~~al~  175 (203)
T 3gw4_A          162 NLLEAQQHWLRARD  175 (203)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999998764

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.65  E-value=1.5e-06  Score=71.89  Aligned_cols=167  Identities=14%  Similarity=0.102  Sum_probs=121.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCC-CCH-HHHH
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGL-PP-SAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQ-PST-ETYT  228 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~~-~~~~  228 (352)
                      +...+..+...+.+.|++++|...|+++.+..- .| ....+..+..+|.+.|++++|...|+++.+..-. +.. .++-
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            455667777889999999999999999987532 12 2467788899999999999999999999876321 111 2444


Q ss_pred             HHHHHHHh------------------cCCHHHHHHHHHHHHhCCCCCCHH-HH-----------------HHHHHHHHhc
Q 045379          229 LMINLYGK------------------ASKSFMALKLFNEMRSHKCKPNIC-TY-----------------TALVNAFARE  272 (352)
Q Consensus       229 ~li~~~~~------------------~g~~~~a~~l~~~m~~~g~~p~~~-t~-----------------~~li~~~~~~  272 (352)
                      .+..++..                  .|++++|...|+++.+..  |+.. .+                 ..+...|.+.
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~  160 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTER  160 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            44444443                  678999999999998752  3321 11                 2445678889


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHHH
Q 045379          273 GLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLV  343 (352)
Q Consensus       273 g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~~  343 (352)
                      |++++|...|+++.+.  .|+.                    +.....+..+..+|.+.|++++|.+.+..
T Consensus       161 ~~~~~A~~~~~~~l~~--~p~~--------------------~~~~~a~~~l~~~~~~~g~~~~A~~~~~~  209 (225)
T 2yhc_A          161 GAWVAVVNRVEGMLRD--YPDT--------------------QATRDALPLMENAYRQMQMNAQAEKVAKI  209 (225)
T ss_dssp             TCHHHHHHHHHHHHHH--STTS--------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHH--CcCC--------------------CccHHHHHHHHHHHHHcCCcHHHHHHHHH
Confidence            9999999999998764  2220                    00135678899999999999999999873

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.65  E-value=1.5e-06  Score=82.46  Aligned_cols=131  Identities=10%  Similarity=0.004  Sum_probs=113.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|..+...+.+.|++++|.+.|++..+... .+...+..+..++...|++++|.+.+++..+.. +.+...+..+...|.
T Consensus        25 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~  102 (568)
T 2vsy_A           25 AWLMLADAELGMGDTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQRHAEAAVLLQQASDAA-PEHPGIALWLGHALE  102 (568)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            566777888889999999999999988653 367899999999999999999999999998863 456788999999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHhCC
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKA---SKSFMALKLFNEMRSHK  254 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~l~~~m~~~g  254 (352)
                      +.|++++|.+.|++..+.. +.+...+..+...+...   |+.++|.+.+++..+.+
T Consensus       103 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A          103 DAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            9999999999999988764 34678899999999999   99999999999987754

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.65  E-value=1.7e-07  Score=90.86  Aligned_cols=148  Identities=10%  Similarity=-0.018  Sum_probs=123.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|..+...+.+.|++++|.+.|++..+... -+...|..+..++...|++++|.+.|++..+.. +.+...+..+..+|.
T Consensus       435 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~  512 (681)
T 2pzi_A          435 LPLMEVRALLDLGDVAKATRKLDDLAERVG-WRWRLVWYRAVAELLTGDYDSATKHFTEVLDTF-PGELAPKLALAATAE  512 (681)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhccCc-chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence            567777888999999999999999987543 367799999999999999999999999998864 346788899999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCC
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN-ICTYTALVNAFAREGL  274 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~li~~~~~~g~  274 (352)
                      +.|++++ ...|++..+.. +.+...|..+..++.+.|++++|++.|++..+.  .|+ ...+..+..++...++
T Consensus       513 ~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          513 LAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTLDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHHHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            9999999 99999998864 346789999999999999999999999988765  455 5567777777766555

>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=98.64  E-value=3.2e-06  Score=65.56  Aligned_cols=127  Identities=10%  Similarity=-0.093  Sum_probs=77.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|..+...+...|++++|.+.|.+..+... .+..++..+..++...|++++|...+++..+.. +.+...+..+...+.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            566667777777777777777777765432 245666666777777777777777777666542 334556666666666


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHH--HHHHHHhcCCHHHHHHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTL--MINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~--li~~~~~~g~~~~a~~l~~~m  250 (352)
                      ..|++++|...|++..+.. +.+...+..  +...+...|++++|++.+...
T Consensus        93 ~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            6666666666666665542 123333322  222355556666666655543

>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=98.62  E-value=3.4e-06  Score=65.46  Aligned_cols=130  Identities=14%  Similarity=0.023  Sum_probs=107.3

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 045379          154 EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINL  233 (352)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  233 (352)
                      ...+..+...+...|++++|...|++..+.. +.+..++..+...+...|++++|...+++..+.. +.+...+..+..+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3467778888999999999999999988763 4567889999999999999999999999988864 4468889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHHH
Q 045379          234 YGKASKSFMALKLFNEMRSHKCKPNICTYT--ALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       234 ~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~--~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                      +...|++++|...|++..+.. +.+...+.  .....+.+.|++++|...+.+..
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            999999999999999988753 23444553  34444778899999999998764

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.61  E-value=4e-07  Score=70.29  Aligned_cols=145  Identities=12%  Similarity=0.077  Sum_probs=108.6

Q ss_pred             HHHHHHhcCCHHHHHHHhcCCCC-chhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 045379           69 ILRFVQREVDSNTIWDAFDSLPP-THATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLD  147 (352)
Q Consensus        69 l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  147 (352)
                      |-.++...|++++|+..+++..+ ++....                       .+-.+...|.+.|++++|.+.|++..+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p~~~~-----------------------~~~~la~~y~~~~~~~~A~~~~~~al~   59 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPRQKSI-----------------------KGFYFAKLYYEAKEYDLAKKYICTYIN   59 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHHHHHT-----------------------THHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCcccHH-----------------------HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34456678899999888876532 111100                       345567889999999999999999997


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH-HHHHHHcCCCCCHHH
Q 045379          148 SRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEI-FQRMKRDCCQPSTET  226 (352)
Q Consensus       148 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~-~~~m~~~~~~~~~~~  226 (352)
                      ... -+..+|..+..++...|++++|...|++..+.. +-+...+..+...|.+.|++++|... +++..+.. +-+..+
T Consensus        60 ~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~  136 (150)
T 4ga2_A           60 VQE-RDPKAHRFLGLLYELEENTDKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAV  136 (150)
T ss_dssp             HCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHH
T ss_pred             hCC-CCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHH
Confidence            653 367899999999999999999999999998863 34678899999999999999876655 57777653 346777


Q ss_pred             HHHHHHHHHhcCC
Q 045379          227 YTLMINLYGKASK  239 (352)
Q Consensus       227 ~~~li~~~~~~g~  239 (352)
                      |+.....+...|+
T Consensus       137 ~~l~~~ll~~~G~  149 (150)
T 4ga2_A          137 YKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHhCc
Confidence            8777777666664

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.61  E-value=2.1e-06  Score=70.13  Aligned_cols=182  Identities=12%  Similarity=-0.035  Sum_probs=124.9

Q ss_pred             HHHHHHHhcCCHHHHHHHhcCCC---C-chhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHH
Q 045379           68 QILRFVQREVDSNTIWDAFDSLP---P-THATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYL  143 (352)
Q Consensus        68 ~l~~~~~~~g~~~~A~~~~~~~~---~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~  143 (352)
                      .....+...|++++|...|++..   | +...|..       .+ .......  ....++.+...|.+.|++++|...|+
T Consensus         9 ~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~-------~~-~~~~~~~--~~~~~~~lg~~~~~~g~~~~A~~~~~   78 (208)
T 3urz_A            9 QKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYW-------TN-VDKNSEI--SSKLATELALAYKKNRNYDKAYLFYK   78 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHH-------HH-SCTTSHH--HHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHH-------hh-hcchhhh--hHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            34455678999999999998753   2 2222211       01 1111111  11144568889999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC--HHHHHHHHHHHHHcCCC
Q 045379          144 ELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGN--PQKAVEIFQRMKRDCCQ  221 (352)
Q Consensus       144 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~--~~~a~~~~~~m~~~~~~  221 (352)
                      +..+..+ -+...+..+..++...|++++|...|++..+.. +.+..++..+...|...|.  .+.+...++....  ..
T Consensus        79 ~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~  154 (208)
T 3urz_A           79 ELLQKAP-NNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PT  154 (208)
T ss_dssp             HHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CC
T ss_pred             HHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CC
Confidence            9998653 367899999999999999999999999998864 4567888888888766654  3455666665542  12


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 045379          222 PSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTAL  265 (352)
Q Consensus       222 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~l  265 (352)
                      |....+...-.++...|++++|+..|++..+.  .|+......+
T Consensus       155 ~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l  196 (208)
T 3urz_A          155 KMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHH
T ss_pred             chhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence            22234444566677789999999999999875  6776544443

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.60  E-value=1e-06  Score=76.71  Aligned_cols=165  Identities=13%  Similarity=0.022  Sum_probs=124.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-CHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDS----RCIP-TEDTYALLLKAYCMSGLLEKAEAVFREMRKY----GLPP-SAV  190 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~~-~~~  190 (352)
                      .|+.....|...|++++|.+.|.+..+.    +-.+ -..+|+.+..+|...|++++|...|++..+.    |-.. ...
T Consensus        38 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  117 (307)
T 2ifu_A           38 EYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAM  117 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            6677778888999999999999887642    1111 1348888899999999999999999887543    2111 245


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HH
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRMKRD----CCQP-STETYTLMINLYGKASKSFMALKLFNEMRSH----KCKPN-IC  260 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----g~~p~-~~  260 (352)
                      +++.+...|.. |++++|...|++..+.    +-.+ ...+++.+...|.+.|++++|+..|++....    +..+. ..
T Consensus       118 ~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  196 (307)
T 2ifu_A          118 ALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYK  196 (307)
T ss_dssp             HHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHH
Confidence            77888888888 9999999999987653    1110 1467888999999999999999999988652    22222 23


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          261 TYTALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       261 t~~~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                      .+..+...+...|++++|...|++..
T Consensus       197 ~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          197 KCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            66777778888899999999999987

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.60  E-value=1.2e-05  Score=74.01  Aligned_cols=249  Identities=10%  Similarity=0.012  Sum_probs=168.9

Q ss_pred             hHHHHHHHHHhcCCHHHH---HHHhcCCC--CchhhHHHHHHHHHHHhhccCcchhhHHhH---------HHHHHHHHHH
Q 045379           65 TAQQILRFVQREVDSNTI---WDAFDSLP--PTHATWDDLINVSVQLRLNKKWDPIVLMSC---------VSILLIEAYG  130 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A---~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---------~~~~li~~~~  130 (352)
                      .+..|...|...+..+.+   .+.+....  .++..+..+...+...+.............         ++..|...|.
T Consensus       108 A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~  187 (452)
T 3e4b_A          108 TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQ  187 (452)
T ss_dssp             CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            566777777766654443   23332221  345566666666666554333222211111         7888889999


Q ss_pred             ccC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-H--H
Q 045379          131 QKS---LHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMS----GLLEKAEAVFREMRKYGLPPSAVVYNSYIDG-L--L  200 (352)
Q Consensus       131 ~~g---~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~----g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~--~  200 (352)
                      +.|   +.++|++.|+...+.|. ++...+..+...|...    +++++|...|++.. .|   +...+..+-.. |  .
T Consensus       188 ~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~  262 (452)
T 3e4b_A          188 KKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFP  262 (452)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSG
T ss_pred             HcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCC
Confidence            999   99999999999998875 4666666777777554    69999999999988 44   44566666666 4  4


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKAS-----KSFMALKLFNEMRSHKCKPNICTYTALVNAFAR----  271 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-----~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~----  271 (352)
                      ..+++++|...|++..+.|   +...+..|-..|. .|     ++++|.+.|++.. .   -+...+..|-..|..    
T Consensus       263 ~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~  334 (452)
T 3e4b_A          263 ELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAADYYLGQIYRRGYLG  334 (452)
T ss_dssp             GGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTS
T ss_pred             CCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCC
Confidence            6899999999999999876   6778888888887 56     9999999999887 3   367778888877776    


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCC
Q 045379          272 EGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGL  333 (352)
Q Consensus       272 ~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~  333 (352)
                      ..+.++|..+|++..+.|. |+.  ...|-..|.    -..|+++|...-......-+..|.
T Consensus       335 ~~d~~~A~~~~~~Aa~~g~-~~A--~~~Lg~~y~----~G~g~~~d~~~A~~~~~~A~~~g~  389 (452)
T 3e4b_A          335 KVYPQKALDHLLTAARNGQ-NSA--DFAIAQLFS----QGKGTKPDPLNAYVFSQLAKAQDT  389 (452)
T ss_dssp             SCCHHHHHHHHHHHHTTTC-TTH--HHHHHHHHH----SCTTBCCCHHHHHHHHHHHHTTCC
T ss_pred             CcCHHHHHHHHHHHHhhCh-HHH--HHHHHHHHH----hCCCCCCCHHHHHHHHHHHHHCCC
Confidence            4499999999999998775 222  111211111    023455565554445554455554

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

Probab=98.60  E-value=4.4e-06  Score=61.06  Aligned_cols=96  Identities=18%  Similarity=0.232  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 045379          155 DTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLY  234 (352)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  234 (352)
                      ..+..+...+...|++++|.+.++++.+.. +.+..++..+...+.+.|++++|...|+++.+.. +.+..++..+...|
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            345555555555555555555555554432 2334455555555555555555555555555432 22444555555555


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 045379          235 GKASKSFMALKLFNEMRS  252 (352)
Q Consensus       235 ~~~g~~~~a~~l~~~m~~  252 (352)
                      ...|++++|...|+++.+
T Consensus        88 ~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHH
Confidence            555555555555555544

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.58  E-value=1.2e-06  Score=76.29  Aligned_cols=202  Identities=11%  Similarity=-0.049  Sum_probs=140.1

Q ss_pred             CcCcchhHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHH
Q 045379           59 FPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKA  138 (352)
Q Consensus        59 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  138 (352)
                      +......++.....|...|++++|...|.+.          +..+.+.+      .......+|+.+...|.+.|++++|
T Consensus        32 ~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~a----------l~~~~~~~------~~~~~a~~~~~lg~~~~~~g~~~~A   95 (307)
T 2ifu_A           32 YDSAASEYAKAAVAFKNAKQLEQAKDAYLQE----------AEAHANNR------SLFHAAKAFEQAGMMLKDLQRMPEA   95 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH----------HHHHHHTT------CHHHHHHHHHHHHHHHHHTTCGGGG
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH----------HHHHHHcC------CHHHHHHHHHHHHHHHHhCCCHHHH
Confidence            3333446677788888999999998877643          22221111      1112223788888999999999999


Q ss_pred             HHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHcCCCHHHH
Q 045379          139 EFTYLELLDS----RCIP-TEDTYALLLKAYCMSGLLEKAEAVFREMRKY----GLPP-SAVVYNSYIDGLLKGGNPQKA  208 (352)
Q Consensus       139 ~~l~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a  208 (352)
                      ...|++..+.    |-.+ -..++..+...|.. |++++|...|++..+.    +..+ ...+++.+...|.+.|++++|
T Consensus        96 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A  174 (307)
T 2ifu_A           96 VQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEA  174 (307)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHH
Confidence            9999887642    2111 23578888888888 9999999999987653    2111 146788899999999999999


Q ss_pred             HHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC------HHHHHHHHHHHHhcCCHHH
Q 045379          209 VEIFQRMKRD----CCQPS-TETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN------ICTYTALVNAFAREGLCEE  277 (352)
Q Consensus       209 ~~~~~~m~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~------~~t~~~li~~~~~~g~~~~  277 (352)
                      ...|++..+.    +..+. ...+..+..++...|++++|...|++.. .  .|+      ......++.++ ..|+.+.
T Consensus       175 ~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~  250 (307)
T 2ifu_A          175 AASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQ  250 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHH
T ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHH
Confidence            9999988763    21111 2367777888888999999999999987 3  232      12345556655 5777766


Q ss_pred             HHHH
Q 045379          278 AEEI  281 (352)
Q Consensus       278 a~~l  281 (352)
                      +.++
T Consensus       251 ~~~~  254 (307)
T 2ifu_A          251 LLRV  254 (307)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6663

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

Probab=98.58  E-value=4.2e-06  Score=61.22  Aligned_cols=113  Identities=19%  Similarity=0.154  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      +|..+...+...|++++|.+.|+++.+... .+..++..+...+...|++++|...++++.+.. +.+..++..+...|.
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~   88 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            677788899999999999999999987542 467889999999999999999999999998763 456788999999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGK  236 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  236 (352)
                      ..|++++|...|++..+.. +.+...+..+...+..
T Consensus        89 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  123 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQK  123 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHh
Confidence            9999999999999998763 3355666666555544

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.57  E-value=1e-05  Score=69.67  Aligned_cols=166  Identities=8%  Similarity=-0.029  Sum_probs=123.1

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCCH----HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCC-CC----HHH
Q 045379          157 YALLLKAYCMSGLLEKAEAVFREMRKYG-LPPSA----VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQ-PS----TET  226 (352)
Q Consensus       157 ~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~----~~~  226 (352)
                      +...+..+...|++++|..++++..+.. ..|+.    ..+..+...+...+++++|...|++..+.... ++    ..+
T Consensus        78 l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 3u3w_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHH
Confidence            3344778899999999999999988743 22221    23445777777888999999999999873222 22    347


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh----C-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 045379          227 YTLMINLYGKASKSFMALKLFNEMRS----H-KCKPN-ICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNAL  300 (352)
Q Consensus       227 ~~~li~~~~~~g~~~~a~~l~~~m~~----~-g~~p~-~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~l  300 (352)
                      ++.+...|...|++++|+..|++..+    . +..+. ..++..+...|.+.|++++|...+++..+..           
T Consensus       158 ~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~-----------  226 (293)
T 3u3w_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEIS-----------  226 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-----------
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH-----------
Confidence            99999999999999999999999874    1 22222 2378899999999999999999999886420           


Q ss_pred             HHHHHHHHHHhcCCCC-CHHHHHHHHHHHHHcCC-cchhHHHHH
Q 045379          301 MEAYRLISRMHMGCEP-DRASYNIMVDAYGRAGL-HEGKCSYSL  342 (352)
Q Consensus       301 i~a~~~~~~m~~~~~p-~~~~~~~li~a~~~~g~-~~~A~~~~~  342 (352)
                             .  ..+..+ -...|..+..+|.+.|+ +++|.+.|.
T Consensus       227 -------~--~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~  261 (293)
T 3u3w_A          227 -------C--RINSMALIGQLYYQRGECLRKLEYEEAEIEDAYK  261 (293)
T ss_dssp             -------H--HTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             -------H--HcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHH
Confidence                   0  111122 26778889999999995 599998875

>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=98.52  E-value=1.3e-06  Score=70.51  Aligned_cols=121  Identities=12%  Similarity=-0.102  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CC--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCI-PT--------------EDTYALLLKAYCMSGLLEKAEAVFREMRKYGL  185 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~-p~--------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  185 (352)
                      .+..+...+.+.|++++|.+.|.+..+.... |+              ...|..+..++...|++++|...+++..+.. 
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-  118 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-  118 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-
Confidence            5666777888899999999999988864321 11              1445555555555555555555555554431 


Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 045379          186 PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMA  243 (352)
Q Consensus       186 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  243 (352)
                      +.+...+..+..+|...|++++|...|++..+.. +-+...+..+..++...++.+++
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~  175 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKK  175 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC-
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHH
Confidence            2334444555555555555555555555544431 12334444444444444444333

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.52  E-value=1.5e-05  Score=68.63  Aligned_cols=168  Identities=8%  Similarity=-0.032  Sum_probs=122.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHcCCCHHHHHHHHHHHHHcC---CCCC--H
Q 045379          155 DTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS-----AVVYNSYIDGLLKGGNPQKAVEIFQRMKRDC---CQPS--T  224 (352)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~~~--~  224 (352)
                      ..+...+..+...|++++|.+.+.+..+..-...     ...+..+...+...|++++|...+++..+..   ..+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            3455667788999999999999998877532211     1234456667788999999999999987532   1222  4


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHh---C-CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 045379          225 ETYTLMINLYGKASKSFMALKLFNEMRS---H-KCKP--NICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYN  298 (352)
Q Consensus       225 ~~~~~li~~~~~~g~~~~a~~l~~~m~~---~-g~~p--~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~  298 (352)
                      .+++.+...|...|++++|+..|++..+   . +-.+  ...++..+...|.+.|++++|...+++..+..         
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~---------  226 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEIS---------  226 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHH---------
Confidence            5899999999999999999999998863   1 1111  12588999999999999999999999986421         


Q ss_pred             HHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHHHcCCcchh-HHHHH
Q 045379          299 ALMEAYRLISRMHMGCE-PDRASYNIMVDAYGRAGLHEGK-CSYSL  342 (352)
Q Consensus       299 ~li~a~~~~~~m~~~~~-p~~~~~~~li~a~~~~g~~~~A-~~~~~  342 (352)
                               .  ..+.. .-..+|..+..+|.+.|+.++| ..+|.
T Consensus       227 ---------~--~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~  261 (293)
T 2qfc_A          227 ---------C--RINSMALIGQLYYQRGECLRKLEYEEAEIEDAYK  261 (293)
T ss_dssp             ---------H--HTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             ---------H--hcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHH
Confidence                     0  00111 1256778888899999999999 66554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.51  E-value=4.8e-06  Score=61.85  Aligned_cols=118  Identities=11%  Similarity=-0.039  Sum_probs=71.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMIN  232 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  232 (352)
                      +...+..+...+...|++++|...+++..+.. +.+...+..+...|...|++++|...+++..+.. +.+...+..+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHH
Confidence            44566666666667777777777776666542 2345666666666667777777777777666542 234566666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 045379          233 LYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREG  273 (352)
Q Consensus       233 ~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g  273 (352)
                      ++...|++++|.+.|++..+.. +-+...+..+...+...|
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            7777777777777776665432 112334444444444433

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.49  E-value=5.9e-06  Score=60.95  Aligned_cols=115  Identities=16%  Similarity=0.028  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYG  235 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  235 (352)
                      .+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+.
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHH
Confidence            33444444444444444444444443321 2233444444444444444444444444444331 223444444444455


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 045379          236 KASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREG  273 (352)
Q Consensus       236 ~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g  273 (352)
                      ..|++++|.+.|++..+.. +.+...+..+...+.+.|
T Consensus        92 ~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLR  128 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHT
T ss_pred             HhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHh
Confidence            5555555555554444331 123334444444444333

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.48  E-value=7.4e-06  Score=61.04  Aligned_cols=96  Identities=11%  Similarity=-0.090  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|......|.+.|++++|++.|++..+... .+...|..+..++.+.|++++|+..+++..+.. +.+...|..+..+|.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDP-ENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            344445555556666666666655554332 244555555555555555555555555555432 233455555555555


Q ss_pred             cCCCHHHHHHHHHHHHHc
Q 045379          201 KGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~  218 (352)
                      ..|++++|...|++..+.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            555555555555555543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.47  E-value=8.6e-06  Score=60.03  Aligned_cols=117  Identities=10%  Similarity=-0.079  Sum_probs=99.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .+..+...+...|++++|.+.|++..+... .+...+..+..++...|++++|...+++..+.. +.+...+..+...|.
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIELNP-ANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHH
Confidence            677888899999999999999999987542 367889999999999999999999999998763 446788999999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKS  240 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  240 (352)
                      ..|++++|...|++..+.. +.+...+..+..++...|++
T Consensus        92 ~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            9999999999999988763 34677888888888777764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.46  E-value=1.2e-05  Score=62.04  Aligned_cols=96  Identities=16%  Similarity=0.027  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .+..+...+.+.|++++|.+.|++..+..+ -+...|..+..++...|++++|...|++..+.. +.+...|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYDF-YNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHH
Confidence            344455556666677777777766665432 245566666666666666666666666666543 234456666666666


Q ss_pred             cCCCHHHHHHHHHHHHHc
Q 045379          201 KGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~  218 (352)
                      +.|++++|...|++..+.
T Consensus       116 ~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            666666666666666654

>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=98.45  E-value=9.4e-06  Score=71.54  Aligned_cols=94  Identities=11%  Similarity=-0.080  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 045379          190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAF  269 (352)
Q Consensus       190 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~  269 (352)
                      ..|..+..+|.+.|++++|...|++..+.. +.+...+..+..+|...|++++|+..|++..+.. +-+...+..+...+
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~  274 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQ  274 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            566666666666777777777776666553 3356666666777777777777777777666542 23455666666666


Q ss_pred             HhcCCHHHH-HHHHHHH
Q 045379          270 AREGLCEEA-EEIFEQL  285 (352)
Q Consensus       270 ~~~g~~~~a-~~l~~~m  285 (352)
                      .+.|+.++| ..+|..|
T Consensus       275 ~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          275 QRIRRQLAREKKLYANM  291 (336)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            666766666 3344444

>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=98.45  E-value=7.1e-06  Score=72.34  Aligned_cols=129  Identities=11%  Similarity=-0.014  Sum_probs=111.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT--------------EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLP  186 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~--------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  186 (352)
                      .|..+...|.+.|++++|...|++..+......              ...|..+..++.+.|++++|...+++..+.. +
T Consensus       149 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  227 (336)
T 1p5q_A          149 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-S  227 (336)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            888899999999999999999999987553322              5899999999999999999999999998864 4


Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 045379          187 PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMA-LKLFNEMR  251 (352)
Q Consensus       187 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a-~~l~~~m~  251 (352)
                      .+...+..+..+|...|++++|...|++..+.. +.+...+..+..++.+.|+.++| ..+++.|.
T Consensus       228 ~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          228 NNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            578899999999999999999999999998864 34678899999999999999988 44566553

>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=98.44  E-value=2.6e-06  Score=67.36  Aligned_cols=121  Identities=8%  Similarity=0.066  Sum_probs=77.5

Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHcCCCH--H
Q 045379          130 GQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDG-LLKGGNP--Q  206 (352)
Q Consensus       130 ~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~g~~--~  206 (352)
                      ...|++++|...+....+... .+...|..+...+...|++++|...|++..+.. +.+...+..+... |...|++  +
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            345677777777777665432 356677777777777777777777777776543 2345566666666 6677776  7


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          207 KAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       207 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      +|...|++..+.. +.+...+..+...|...|++++|...|++..+.
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            7777777776653 234566667777777777777777777776654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.44  E-value=1.3e-05  Score=59.61  Aligned_cols=96  Identities=16%  Similarity=0.045  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYG  235 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  235 (352)
                      .+...-..+.+.|++++|.+.|++..+.. +.+...|..+..+|.+.|++++|...|++..+.. +.+...|..+..+|.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            55556666666667777766666666542 3455666666666666666666666666666543 234556666666666


Q ss_pred             hcCCHHHHHHHHHHHHhC
Q 045379          236 KASKSFMALKLFNEMRSH  253 (352)
Q Consensus       236 ~~g~~~~a~~l~~~m~~~  253 (352)
                      ..|++++|++.|++..+.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            666666666666666553

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.42  E-value=2.9e-06  Score=68.33  Aligned_cols=132  Identities=13%  Similarity=0.049  Sum_probs=101.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCC--CCH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLD----SRCIP-TEDTYALLLKAYCMSGLLEKAEAVFREMRKY----GLP--PSA  189 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~----~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~--~~~  189 (352)
                      +++.+...+...|++++|.+.+++..+    .+..| ...++..+...+...|++++|...+++..+.    +-.  ...
T Consensus        28 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  107 (203)
T 3gw4_A           28 ARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAAS  107 (203)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHH
Confidence            667778889999999999999998875    22222 3457888889999999999999999887653    211  124


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC-QPS----TETYTLMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       190 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      ..+..+...+...|++++|...+++..+..- ..+    ..++..+...+...|++++|.+.+++..+
T Consensus       108 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          108 ANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            5678888999999999999999998764210 112    23467888999999999999999887754

>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=98.41  E-value=6.3e-06  Score=65.03  Aligned_cols=121  Identities=10%  Similarity=0.101  Sum_probs=99.6

Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHhcCCH--H
Q 045379          165 CMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINL-YGKASKS--F  241 (352)
Q Consensus       165 ~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~g~~--~  241 (352)
                      ...|++++|...+++..+.. +.+...+..+...|...|++++|...|++..+.. +.+...+..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchH
Confidence            45688999999999887763 4577899999999999999999999999988763 3467788888888 8899998  9


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          242 MALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       242 ~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      +|...+++..+.. +.+...+..+...|...|++++|...|+++.+.
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            9999999998763 345778889999999999999999999999876

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.41  E-value=8.8e-06  Score=60.34  Aligned_cols=115  Identities=14%  Similarity=-0.028  Sum_probs=95.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|..+...+.+.|++++|.+.|++..+... .+...+..+..++...|++++|.+.+++..+.. +.+...+..+...|.
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~   95 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAALE   95 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHHH
Confidence            677888899999999999999999987643 367899999999999999999999999998863 456788999999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKAS  238 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  238 (352)
                      +.|++++|...|++..+.. +.+...+..+..++...|
T Consensus        96 ~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           96 AMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            9999999999999988763 224456666666666554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.40  E-value=1.6e-05  Score=61.30  Aligned_cols=97  Identities=14%  Similarity=0.007  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 045379          190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAF  269 (352)
Q Consensus       190 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~  269 (352)
                      ..+..+...+.+.|++++|...|++..+.. +.+...|..+-.+|...|++++|+..|++..... +-+...|..+..+|
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~  114 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHH
Confidence            344455555556666666666666655542 2345555666666666666666666666655432 22344555566666


Q ss_pred             HhcCCHHHHHHHHHHHHHC
Q 045379          270 AREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       270 ~~~g~~~~a~~l~~~m~~~  288 (352)
                      .+.|++++|...|++..+.
T Consensus       115 ~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            6666666666666665543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.38  E-value=6.8e-05  Score=64.87  Aligned_cols=218  Identities=8%  Similarity=0.004  Sum_probs=158.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHh--hccCcchhhHHhH--------HHHHHHHHH---
Q 045379           67 QQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLR--LNKKWDPIVLMSC--------VSILLIEAY---  129 (352)
Q Consensus        67 ~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~--~~~~~~~~~~~~~--------~~~~li~~~---  129 (352)
                      ..+.....+....++|+.+++.+    |.+...|+.=..++...+  +.+.....+....        +|+.--..+   
T Consensus        37 ~~~~a~~~~~e~s~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~  116 (306)
T 3dra_A           37 GLLLALMKAEEYSERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQI  116 (306)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHH
Confidence            33344444444556888887765    356667887776666555  2222222222211        565544444   


Q ss_pred             -Hcc---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH--HHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC
Q 045379          130 -GQK---SLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLE--KAEAVFREMRKYGLPPSAVVYNSYIDGLLKGG  203 (352)
Q Consensus       130 -~~~---g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~--~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  203 (352)
                       ...   +++++++++++.+.+...+ +..+|+--.-...+.|+++  ++++.++.+.+.. +-|-..|+.-...+.+.+
T Consensus       117 ~~~l~~~~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~  194 (306)
T 3dra_A          117 MELNNNDFDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKK  194 (306)
T ss_dssp             HHHTTTCCCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSG
T ss_pred             HHhccccCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcc
Confidence             444   7899999999999986653 8889988888888899988  9999999999875 457788887777777777


Q ss_pred             C------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCC
Q 045379          204 N------PQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFM-ALKLFNEMRSHK--CKPNICTYTALVNAFAREGL  274 (352)
Q Consensus       204 ~------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~l~~~m~~~g--~~p~~~t~~~li~~~~~~g~  274 (352)
                      +      ++++++.+++..+.. +-|...|+.+-..+.+.|+..+ +..+..++.+.+  -..+...+..+...|.+.|+
T Consensus       195 ~~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~  273 (306)
T 3dra_A          195 HLATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKK  273 (306)
T ss_dssp             GGCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTC
T ss_pred             ccchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCC
Confidence            6      899999999988875 4588999999888888888544 555666655432  23577889999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 045379          275 CEEAEEIFEQLQG  287 (352)
Q Consensus       275 ~~~a~~l~~~m~~  287 (352)
                      .++|.++++.+.+
T Consensus       274 ~~~A~~~~~~l~~  286 (306)
T 3dra_A          274 YNESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999999975

>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=98.37  E-value=1.1e-06  Score=71.06  Aligned_cols=160  Identities=6%  Similarity=-0.076  Sum_probs=102.3

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-C---C-----------HH
Q 045379          126 IEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLP-P---S-----------AV  190 (352)
Q Consensus       126 i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~---~-----------~~  190 (352)
                      +......|+++++.+.|+.-.+... .....+..+...+...|++++|...|++..+..-. |   .           ..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~   89 (198)
T 2fbn_A           11 SSGRENLYFQGAKKSIYDYTDEEKV-QSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEIS   89 (198)
T ss_dssp             -----------CCCSGGGCCHHHHH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhccccCchhhCCHHHHH-HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHH
Confidence            3444555666666666653322111 13446777888899999999999999998874211 1   1           26


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFA  270 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~  270 (352)
                      .+..+..+|.+.|++++|...+++..+.. +.+...+..+..+|...|++++|.+.|++..+.. +-+...+..+...+.
T Consensus        90 ~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  167 (198)
T 2fbn_A           90 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVN  167 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHH
Confidence            78888888999999999999999888763 4467888888899999999999999999887652 335667777777777


Q ss_pred             hcCCHHHHH-HHHHHHHHC
Q 045379          271 REGLCEEAE-EIFEQLQGA  288 (352)
Q Consensus       271 ~~g~~~~a~-~l~~~m~~~  288 (352)
                      ..++.+++. ..+..+...
T Consensus       168 ~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          168 KLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHHHHC------------
T ss_pred             HHHHHHHHHHHHHHHHhcc
Confidence            777777666 555555443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.35  E-value=1.7e-05  Score=67.38  Aligned_cols=127  Identities=10%  Similarity=-0.100  Sum_probs=60.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHh
Q 045379          159 LLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPS--TETYTLMINLYGK  236 (352)
Q Consensus       159 ~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~  236 (352)
                      .....+...|++++|.++|+.+...+  |+....-.+...+.+.+++++|+..|+...+.. .|.  ...+..+-.++.+
T Consensus       107 ayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~  183 (282)
T 4f3v_A          107 GFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAAN  183 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHH
Confidence            34444455555555555555544332  222233333334555555555555555433321 010  1244455555556


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          237 ASKSFMALKLFNEMRSHKCKPN--ICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       237 ~g~~~~a~~l~~~m~~~g~~p~--~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      .|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...
T Consensus       184 LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          184 LALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             TTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            6666666666665553222132  224444555555566666666666665543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.32  E-value=2.2e-05  Score=71.23  Aligned_cols=161  Identities=13%  Similarity=0.063  Sum_probs=119.1

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCC----------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCCH
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPT----------------EDTYALLLKAYCMSGLLEKAEAVFREMRKY-GLPPSA  189 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~----------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~~~  189 (352)
                      ..+.+.|++++|.+.|....+......                ..++..+...|...|++++|.+.+.++.+. +-.++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            456788999999999999987543211                135788999999999999999999887653 111121


Q ss_pred             ----HHHHHHHHHHHcCCCHHHHHHHHHHHHH----cCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CC--C
Q 045379          190 ----VVYNSYIDGLLKGGNPQKAVEIFQRMKR----DCCQP-STETYTLMINLYGKASKSFMALKLFNEMRSH--KC--K  256 (352)
Q Consensus       190 ----~~~~~li~~~~~~g~~~~a~~~~~~m~~----~~~~~-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~--g~--~  256 (352)
                          .+.+.+-..+...|++++|..++++...    .+..+ -..++..+...|...|++++|..++++....  +.  +
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence                2233344445567899999999987654    22232 3567888999999999999999999987542  11  1


Q ss_pred             C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          257 P-NICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       257 p-~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      + ...++..++..|...|++++|..++++...
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            2 245788999999999999999999998764

>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=98.30  E-value=4.9e-06  Score=63.94  Aligned_cols=94  Identities=11%  Similarity=-0.098  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYG  235 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  235 (352)
                      .+..+...+.+.|++++|...|++..+.. +.+...|..+..+|...|++++|...|++..+.. +.+...+..+..+|.
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~  100 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            34444444455555555555555444432 2234444444444555555555555555444432 123344444444445


Q ss_pred             hcCCHHHHHHHHHHHH
Q 045379          236 KASKSFMALKLFNEMR  251 (352)
Q Consensus       236 ~~g~~~~a~~l~~~m~  251 (352)
                      ..|++++|.+.|+...
T Consensus       101 ~~g~~~~A~~~~~~al  116 (148)
T 2vgx_A          101 QXGELAEAESGLFLAQ  116 (148)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHH
Confidence            5555555555444443

>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=98.30  E-value=5.6e-05  Score=54.39  Aligned_cols=25  Identities=12%  Similarity=-0.002  Sum_probs=9.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          226 TYTLMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       226 ~~~~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      .+..+..++...|++++|.+.+++.
T Consensus        74 ~~~~~a~~~~~~~~~~~A~~~~~~~   98 (118)
T 1elw_A           74 GYSRKAAALEFLNRFEEAKRTYEEG   98 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            3333333344444444444444333

>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=98.30  E-value=5.6e-06  Score=63.60  Aligned_cols=96  Identities=11%  Similarity=-0.044  Sum_probs=53.5

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 045379          190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAF  269 (352)
Q Consensus       190 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~  269 (352)
                      ..+..+...+...|++++|...|++..+.. +.+...|..+-.+|...|++++|+..|++..... +.+...+..+..+|
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHH
Confidence            344445555556666666666666555442 2345555556666666666666666666655432 22344555555666


Q ss_pred             HhcCCHHHHHHHHHHHHH
Q 045379          270 AREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       270 ~~~g~~~~a~~l~~~m~~  287 (352)
                      ...|++++|...|++..+
T Consensus       100 ~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            666666666666665544

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.27  E-value=7.1e-06  Score=75.89  Aligned_cols=125  Identities=8%  Similarity=-0.044  Sum_probs=69.1

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCC---CC---C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-------CCCCCHHHH
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSR---CI---P-TEDTYALLLKAYCMSGLLEKAEAVFREMRKY-------GLPPSAVVY  192 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~---~~---p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------g~~~~~~~~  192 (352)
                      ..+..+|++++|+.++++.++..   +-   | ...+++.|..+|..+|++++|+.++++..+.       ..+....++
T Consensus       317 ~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l  396 (490)
T 3n71_A          317 DKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAV  396 (490)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            34556777777777776665321   11   2 2336667777777777777777766665431       222334556


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          193 NSYIDGLLKGGNPQKAVEIFQRMKR-------DCCQPSTETYTLMINLYGKASKSFMALKLFNEMR  251 (352)
Q Consensus       193 ~~li~~~~~~g~~~~a~~~~~~m~~-------~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~  251 (352)
                      +.|...|..+|++++|+.++++..+       ..++....+.+.+-.++...+.+++|+.++..+.
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~  462 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMR  462 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666666655432       1112222334445555555555555555555553

>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=98.27  E-value=2.5e-05  Score=58.15  Aligned_cols=104  Identities=14%  Similarity=0.063  Sum_probs=66.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCC----HHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG--LPPS----AVVYNS  194 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~~~----~~~~~~  194 (352)
                      ++..+...+.+.|++++|++.|++..+..+ -+...|..+..+|...|++++|++.+++..+..  ..++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p-~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDP-SNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            566677777778888888888877776432 246677777777777777777777777765431  1111    234555


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHH
Q 045379          195 YIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETY  227 (352)
Q Consensus       195 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  227 (352)
                      +-.++...|++++|.+.|++..+.  .|+....
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~  119 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSE--FRDPELV  119 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHH
Confidence            666666677777777777666553  3454433

>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=98.27  E-value=4.2e-05  Score=56.48  Aligned_cols=91  Identities=18%  Similarity=0.075  Sum_probs=36.9

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 045379          158 ALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKA  237 (352)
Q Consensus       158 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  237 (352)
                      ..+...+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|...|++..+.. +.+...|..+..++...
T Consensus         8 ~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~   85 (126)
T 3upv_A            8 RLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAV   85 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHH
Confidence            333334444444444444444433321 2233344444444444444444444444443331 11233444444444444


Q ss_pred             CCHHHHHHHHHHH
Q 045379          238 SKSFMALKLFNEM  250 (352)
Q Consensus       238 g~~~~a~~l~~~m  250 (352)
                      |++++|...|++.
T Consensus        86 ~~~~~A~~~~~~a   98 (126)
T 3upv_A           86 KEYASALETLDAA   98 (126)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHH
Confidence            4444444444443

>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=98.26  E-value=3.6e-05  Score=56.82  Aligned_cols=98  Identities=12%  Similarity=0.006  Sum_probs=85.9

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 045379          189 AVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNA  268 (352)
Q Consensus       189 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~  268 (352)
                      ...+..+...+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|+..+++..+.. +.+...|..+..+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            4567778888999999999999999988864 4478899999999999999999999999998763 3457789999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHC
Q 045379          269 FAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       269 ~~~~g~~~~a~~l~~~m~~~  288 (352)
                      +...|++++|...|++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            99999999999999998764

>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=98.26  E-value=7.7e-05  Score=53.62  Aligned_cols=107  Identities=12%  Similarity=-0.080  Sum_probs=89.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|..+...+...|++++|.+.|+....... .+...+..+..++...|++++|...+++..+.. +.+...+..+..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            567788889999999999999999987543 367889999999999999999999999998763 446788999999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLM  230 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  230 (352)
                      ..|++++|...+++..+.. +.+...+..+
T Consensus        84 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  112 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHE-ANNPQLKEGL  112 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTC-TTCHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHcC-CCCHHHHHHH
Confidence            9999999999999998763 2344444444

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.26  E-value=1.7e-05  Score=56.66  Aligned_cols=96  Identities=14%  Similarity=0.033  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHH
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKP--NICTYTALVNA  268 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p--~~~t~~~li~~  268 (352)
                      .+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|.+.|++..+.. +.  +...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHH
Confidence            34444555555555555555555555432 2244555555555556666666666665555432 12  34555555555


Q ss_pred             HHhc-CCHHHHHHHHHHHHHC
Q 045379          269 FARE-GLCEEAEEIFEQLQGA  288 (352)
Q Consensus       269 ~~~~-g~~~~a~~l~~~m~~~  288 (352)
                      +.+. |++++|.+.+.+..+.
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHhCCHHHHHHHHHHHhhc
Confidence            6666 6666666666655543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.25  E-value=0.001  Score=57.45  Aligned_cols=210  Identities=7%  Similarity=-0.026  Sum_probs=133.4

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH----HcC
Q 045379          129 YGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSG--LLEKAEAVFREMRKYGLPPSAVVYNSYIDGL----LKG  202 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~----~~~  202 (352)
                      ..+....++|+++++.+...+.. +...|+.--.++...|  ++++++++++.+.... +-+..+|+.--..+    ...
T Consensus        43 ~~~~e~s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l  120 (306)
T 3dra_A           43 MKAEEYSERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELN  120 (306)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHT
T ss_pred             HHcCCCCHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhc
Confidence            33444446778877777764422 4456676666666677  7788888877777653 23334454433333    334


Q ss_pred             ---CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH--HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---
Q 045379          203 ---GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSF--MALKLFNEMRSHKCKPNICTYTALVNAFAREGL---  274 (352)
Q Consensus       203 ---g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~--~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~---  274 (352)
                         ++++++..+++++.+.. +-+..+|+.-.-...+.|.++  ++++.++++.+.. .-|-..|+.-...+.+.|+   
T Consensus       121 ~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~  198 (306)
T 3dra_A          121 NNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLAT  198 (306)
T ss_dssp             TTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCC
T ss_pred             cccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccch
Confidence               67777888887777654 346777777666666777776  7777777777654 3355666666555556555   


Q ss_pred             ---HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-----------HHHHH-hc--CCCCCHHHHHHHHHHHHHcCCcchh
Q 045379          275 ---CEEAEEIFEQLQGAGIEPDVYAYNALMEAYR-----------LISRM-HM--GCEPDRASYNIMVDAYGRAGLHEGK  337 (352)
Q Consensus       275 ---~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~-----------~~~~m-~~--~~~p~~~~~~~li~a~~~~g~~~~A  337 (352)
                         ++++++.+.++.... .-|...|+-+-..+.           +.... ..  .-+.+...+..+.++|.+.|+.++|
T Consensus       199 ~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A  277 (306)
T 3dra_A          199 DNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNES  277 (306)
T ss_dssp             HHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHH
Confidence               777777777776542 234455544443332           22222 11  1245788899999999999999999


Q ss_pred             HHHHHH
Q 045379          338 CSYSLV  343 (352)
Q Consensus       338 ~~~~~~  343 (352)
                      .+++..
T Consensus       278 ~~~~~~  283 (306)
T 3dra_A          278 RTVYDL  283 (306)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999863

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.25  E-value=7.1e-06  Score=75.90  Aligned_cols=140  Identities=9%  Similarity=-0.048  Sum_probs=106.0

Q ss_pred             CCCCCHHHHHHHHH----------HHHHcCCHHHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 045379          149 RCIPTEDTYALLLK----------AYCMSGLLEKAEAVFREMRKY-------GLPPSAVVYNSYIDGLLKGGNPQKAVEI  211 (352)
Q Consensus       149 ~~~p~~~~~~~li~----------~~~~~g~~~~a~~~~~~m~~~-------g~~~~~~~~~~li~~~~~~g~~~~a~~~  211 (352)
                      +.+|+..++..++.          .+..+|++++|+.++++..+.       ..+....+++.|...|..+|++++|+.+
T Consensus       294 ~~~~s~e~v~~~l~~a~~~le~a~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~  373 (490)
T 3n71_A          294 DPKPSQEVVKEMIQFSKDTLEKIDKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHY  373 (490)
T ss_dssp             SSCCCHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            44466665554433          355789999999999887652       2233568899999999999999999999


Q ss_pred             HHHHHHc-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CC--CCCCHHHHHHHHHHHHhcCCHHH
Q 045379          212 FQRMKRD-------CCQPSTETYTLMINLYGKASKSFMALKLFNEMRS-----HK--CKPNICTYTALVNAFAREGLCEE  277 (352)
Q Consensus       212 ~~~m~~~-------~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~-----~g--~~p~~~t~~~li~~~~~~g~~~~  277 (352)
                      +++.++.       .++-...+++.|...|...|++++|+.++++..+     .|  .+....+.+.+-.++...+.+++
T Consensus       374 ~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~  453 (490)
T 3n71_A          374 ARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQ  453 (490)
T ss_dssp             HHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHH
Confidence            9887642       2333457899999999999999999999988754     23  22233456777788889999999


Q ss_pred             HHHHHHHHHHC
Q 045379          278 AEEIFEQLQGA  288 (352)
Q Consensus       278 a~~l~~~m~~~  288 (352)
                      |+.+|.++++.
T Consensus       454 ae~~~~~~~~~  464 (490)
T 3n71_A          454 NEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999763

>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=98.25  E-value=1.8e-05  Score=67.82  Aligned_cols=96  Identities=14%  Similarity=-0.122  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .+..+...+.+.|++++|...|.+..+... .+...|..+..++.+.|++++|...+++..+.. +.+...+..+..+|.
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (281)
T 2c2l_A            6 ELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQL   83 (281)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            456677888899999999999999887542 277889999999999999999999999988763 456788889999999


Q ss_pred             cCCCHHHHHHHHHHHHHc
Q 045379          201 KGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~  218 (352)
                      ..|++++|...|++..+.
T Consensus        84 ~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           84 EMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            999999999999887653

>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=98.24  E-value=4.8e-05  Score=56.82  Aligned_cols=97  Identities=13%  Similarity=0.015  Sum_probs=51.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMIN  232 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  232 (352)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+..+|...|++++|...+++..+.. +.+...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            44555555555555555555555555555432 2334555555555555555555555555555432 223445555555


Q ss_pred             HHHhcCCHHHHHHHHHHHH
Q 045379          233 LYGKASKSFMALKLFNEMR  251 (352)
Q Consensus       233 ~~~~~g~~~~a~~l~~~m~  251 (352)
                      +|...|++++|+..|++..
T Consensus        86 ~~~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHH
Confidence            5555555555555555543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.24  E-value=0.00011  Score=57.01  Aligned_cols=97  Identities=10%  Similarity=-0.016  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 045379          154 EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINL  233 (352)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  233 (352)
                      ...+..+...+...|++++|...|++..+.. +.+...|..+..+|.+.|++++|...|++..+.. +.+...|..+..+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3345555555555555555555555555432 2244555555555555555555555555555442 2234455555555


Q ss_pred             HHhcCCHHHHHHHHHHHHh
Q 045379          234 YGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       234 ~~~~g~~~~a~~l~~~m~~  252 (352)
                      |...|++++|.+.|++..+
T Consensus        89 ~~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHH
Confidence            5555555555555555443

>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=98.24  E-value=3.6e-05  Score=57.26  Aligned_cols=95  Identities=12%  Similarity=0.049  Sum_probs=46.2

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCC----HHHHHHH
Q 045379          192 YNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHK--CKPN----ICTYTAL  265 (352)
Q Consensus       192 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g--~~p~----~~t~~~l  265 (352)
                      +..+-..+.+.|++++|+..|++..+.. +-+...|+.+-.+|.+.|++++|++.+++..+..  ..++    ..+|..+
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            3344444555555555555555544432 2234455555555555555555555555543321  0111    1244555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 045379          266 VNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       266 i~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      -.++...|++++|.+.|++..+
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            5555566666666666665544

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.23  E-value=8.1e-05  Score=71.58  Aligned_cols=213  Identities=12%  Similarity=0.109  Sum_probs=154.1

Q ss_pred             CCCchhhHHHHHHHHHHHhhccCcc-hhhHHhH--------HHHHHHHHHHccCCHHHHHHHHHHHHhCC---------C
Q 045379           89 LPPTHATWDDLINVSVQLRLNKKWD-PIVLMSC--------VSILLIEAYGQKSLHKKAEFTYLELLDSR---------C  150 (352)
Q Consensus        89 ~~~~~~~~~~l~~~~~~~~~~~~~~-~~~~~~~--------~~~~li~~~~~~g~~~~a~~l~~~m~~~~---------~  150 (352)
                      .|.+...|-.........++...+. .+++...        .|-..+...-+.|++++|.++|+.+.+..         .
T Consensus       339 ~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~  418 (679)
T 4e6h_A          339 VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMED  418 (679)
T ss_dssp             TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence            3567778888777777776655553 4444332        57778888888999999999999988631         0


Q ss_pred             CCC------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHcC-CCHHHHHHHHHHHH
Q 045379          151 IPT------------EDTYALLLKAYCMSGLLEKAEAVFREMRKY-GLPPSAVVYNSYIDGLLKG-GNPQKAVEIFQRMK  216 (352)
Q Consensus       151 ~p~------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~m~  216 (352)
                      .|+            ...|...+....+.|..+.|.++|....+. +. ++...|...+..-.+. ++.+.|.++|+...
T Consensus       419 ~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~-~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~L  497 (679)
T 4e6h_A          419 DPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKL-VTPDIYLENAYIEYHISKDTKTACKVLELGL  497 (679)
T ss_dssp             STTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGG-SCTHHHHHHHHHHHTTTSCCHHHHHHHHHHH
T ss_pred             cCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            142            236888888888899999999999999876 21 1223343333333344 45899999999988


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 045379          217 RDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKP--NICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDV  294 (352)
Q Consensus       217 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p--~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~  294 (352)
                      +. ++-+...|...+......|+.+.|..+|+........+  ....|...+..=.+.|+.+.+..+.+++.+.  .|+.
T Consensus       498 k~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~  574 (679)
T 4e6h_A          498 KY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEV  574 (679)
T ss_dssp             HH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTC
T ss_pred             HH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCC
Confidence            76 45567777888888888999999999999988764222  3457888888888899999999999999876  4555


Q ss_pred             HHHHHHHHHHH
Q 045379          295 YAYNALMEAYR  305 (352)
Q Consensus       295 ~~~~~li~a~~  305 (352)
                      .....+++-|.
T Consensus       575 ~~~~~f~~ry~  585 (679)
T 4e6h_A          575 NKLEEFTNKYK  585 (679)
T ss_dssp             CHHHHHHHHTC
T ss_pred             cHHHHHHHHhc
Confidence            55555566664

>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=98.22  E-value=1.9e-05  Score=58.22  Aligned_cols=107  Identities=11%  Similarity=0.049  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCC----HHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGL--PPS----AVVYNS  194 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~~~----~~~~~~  194 (352)
                      .|..+...+...|++++|...|.+..+.. +.+...+..+...+...|++++|...+++..+...  .++    ..++..
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            45566666777777777777777776543 23556666677777777777777777766655321  112    455566


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 045379          195 YIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLM  230 (352)
Q Consensus       195 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  230 (352)
                      +...|...|++++|...|++..+.  .|+......+
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l  118 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKC  118 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence            666666666666666666666654  2344444333

>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=98.21  E-value=6.5e-05  Score=56.09  Aligned_cols=99  Identities=16%  Similarity=0.022  Sum_probs=66.6

Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 045379          187 PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALV  266 (352)
Q Consensus       187 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li  266 (352)
                      .+...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            345666667777777777777777777766653 3356667777777777777777777777766543 23456677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 045379          267 NAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       267 ~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      .+|...|++++|...|.+..+
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            777777777777777776654

>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=98.21  E-value=1.7e-05  Score=58.41  Aligned_cols=96  Identities=14%  Similarity=0.123  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC--CCC----HHHHHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC--QPS----TETYTL  229 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~~~----~~~~~~  229 (352)
                      .+..+...+...|++++|...+++..+.. +.+...+..+...|...|++++|...+++..+...  .++    ..++..
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            44445555555555555555555554432 23444455555555555555555555555443210  111    344444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 045379          230 MINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       230 li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      +..++...|++++|.+.|++..+
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHH
Confidence            44555555555555555554444

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.20  E-value=1.8e-05  Score=60.58  Aligned_cols=97  Identities=14%  Similarity=0.052  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-CCHH
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRMKRD----CCQP-STETYTLMINLYGKASKSFMALKLFNEMRSH----KCK-PNIC  260 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~----g~~-p~~~  260 (352)
                      ++..+...|...|++++|...+++..+.    +-++ ...++..+...+...|++++|.+.+++..+.    +.. ....
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            4444555555555555555555544321    0000 1334555556666666666666666555321    111 1123


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          261 TYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       261 t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      ++..+...|...|++++|.+.+++..+
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            456666677777777777777776543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.19  E-value=1e-05  Score=62.00  Aligned_cols=132  Identities=13%  Similarity=-0.056  Sum_probs=102.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-CHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCI-PT----EDTYALLLKAYCMSGLLEKAEAVFREMRKY----GLPP-SAV  190 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~~-~~~  190 (352)
                      ++..+...+...|++++|.+.+.+..+.... ++    ..++..+...+...|++++|.+.+++..+.    +.++ ...
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            7788889999999999999999988753211 12    247888899999999999999999987653    1111 245


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHc----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRMKRD----CCQ-PSTETYTLMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~-~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      .+..+...+...|++++|...+++..+.    +.. ....++..+...|...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            6788888999999999999999987643    111 1245678889999999999999999988754

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.19  E-value=3.8e-05  Score=58.25  Aligned_cols=95  Identities=11%  Similarity=-0.098  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYG  235 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  235 (352)
                      .+..+...+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|...|++..+.. +.+...+..+..+|.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            44444555555666666666666555442 2344555555555666666666666666555542 224445555555555


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 045379          236 KASKSFMALKLFNEMRS  252 (352)
Q Consensus       236 ~~g~~~~a~~l~~~m~~  252 (352)
                      ..|++++|.+.|+...+
T Consensus        98 ~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            66666666665555543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.17  E-value=3.9e-05  Score=54.75  Aligned_cols=93  Identities=13%  Similarity=-0.052  Sum_probs=46.8

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHc
Q 045379          124 LLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPP--SAVVYNSYIDGLLK  201 (352)
Q Consensus       124 ~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~--~~~~~~~li~~~~~  201 (352)
                      .+...+.+.|++++|...|++..+... .+...+..+..++...|++++|.+.+++..+.. +.  +...+..+...+.+
T Consensus        11 ~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~~~   88 (112)
T 2kck_A           11 LEGVLQYDAGNYTESIDLFEKAIQLDP-EESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADALRY   88 (112)
T ss_dssp             GHHHHHHSSCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHHHH
Confidence            344445555555555555555554321 234455555555555555555555555554432 12  34445555555555


Q ss_pred             C-CCHHHHHHHHHHHHHc
Q 045379          202 G-GNPQKAVEIFQRMKRD  218 (352)
Q Consensus       202 ~-g~~~~a~~~~~~m~~~  218 (352)
                      . |++++|.+.+++..+.
T Consensus        89 ~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           89 IEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             CSSCSHHHHHHHHHHGGG
T ss_pred             HhCCHHHHHHHHHHHhhc
Confidence            5 5555555555555443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.16  E-value=5.2e-05  Score=57.45  Aligned_cols=95  Identities=14%  Similarity=-0.084  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .+..+...+.+.|++++|.+.|+....... .+...|..+..++...|++++|...|++..+.. +.+...+..+..+|.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            344444445555555555555555444322 234444455555555555555555555544432 223344444455555


Q ss_pred             cCCCHHHHHHHHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKR  217 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~  217 (352)
                      ..|++++|...|++..+
T Consensus        98 ~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555554443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.14  E-value=0.00014  Score=54.84  Aligned_cols=95  Identities=15%  Similarity=-0.133  Sum_probs=59.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT----EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYI  196 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li  196 (352)
                      .+..+...+.+.|++++|.+.|++..+..  |+    ...+..+..++...|++++|...+++..+.. +.+...+..+.
T Consensus        30 ~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a  106 (148)
T 2dba_A           30 QLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRRS  106 (148)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHHH
Confidence            45556666777777777777777776543  44    4566666666666677777766666665542 23455566666


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHc
Q 045379          197 DGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       197 ~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      .+|...|++++|...|++..+.
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHc
Confidence            6666666666666666666554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.12  E-value=0.00015  Score=54.57  Aligned_cols=97  Identities=12%  Similarity=-0.050  Sum_probs=52.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS----AVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYT  228 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  228 (352)
                      +...+..+...+...|++++|...|++..+.  .|+    ...+..+...|...|++++|...+++..+.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            4445555555556666666666666655543  233    3445555555555555555555555554432 22344555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          229 LMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       229 ~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      .+..++...|++++|.+.|++...
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555555555555555555555544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.11  E-value=7.7e-05  Score=57.94  Aligned_cols=95  Identities=16%  Similarity=-0.029  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|..+...+.+.|++++|++.|++..+... -+...|..+..++...|++++|...+++..+.. +.+...|..+..+|.
T Consensus        13 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   90 (164)
T 3sz7_A           13 KLKSEGNAAMARKEYSKAIDLYTQALSIAP-ANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLARF   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            455555555556666666666655554332 144555555555555666666666555555542 233455555555555


Q ss_pred             cCCCHHHHHHHHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKR  217 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~  217 (352)
                      ..|++++|...|++..+
T Consensus        91 ~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           91 DMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHH
Confidence            56666666666555544

>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=98.10  E-value=0.00021  Score=61.05  Aligned_cols=100  Identities=15%  Similarity=0.041  Sum_probs=86.3

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 045379          152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMI  231 (352)
Q Consensus       152 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  231 (352)
                      .+...+..+...+...|++++|...|++..+.. +.+...+..+..+|.+.|++++|...+++..+.. +.+...+..+.
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            356788888999999999999999999988763 3478889999999999999999999999988763 44678899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 045379          232 NLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       232 ~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      .+|...|++++|+..|++..+.
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999999987653

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.07  E-value=6.3e-05  Score=63.89  Aligned_cols=184  Identities=5%  Similarity=-0.084  Sum_probs=132.7

Q ss_pred             hcCCHHHHHHHhcCC----CCchhhHHHH-------HHHHHHHhhccCcchhhH--------------------------
Q 045379           75 REVDSNTIWDAFDSL----PPTHATWDDL-------INVSVQLRLNKKWDPIVL--------------------------  117 (352)
Q Consensus        75 ~~g~~~~A~~~~~~~----~~~~~~~~~l-------~~~~~~~~~~~~~~~~~~--------------------------  117 (352)
                      ..++...|.+.|.+.    |.....|+.+       ..++....+....-....                          
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~~   97 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITYP   97 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEEE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccccc
Confidence            579999999999876    3456678877       344444443322211110                          


Q ss_pred             ---HhHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHH
Q 045379          118 ---MSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS--AVVY  192 (352)
Q Consensus       118 ---~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~--~~~~  192 (352)
                         .-..+-.+...+...|++++|.++|..+...+  |+......+...+.+.+++++|+..|+...+.. .|.  ...+
T Consensus        98 v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~  174 (282)
T 4f3v_A           98 VTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAG  174 (282)
T ss_dssp             CSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHH
T ss_pred             cCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHH
Confidence               01145567788999999999999999988755  554466666678999999999999998554432 111  3467


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 045379          193 NSYIDGLLKGGNPQKAVEIFQRMKRDCCQPS--TETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYT  263 (352)
Q Consensus       193 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~  263 (352)
                      ..+-.++...|++++|+..|++.......|.  .......-.++.+.|+.++|..+|+++...  .|+...+.
T Consensus       175 ~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~~  245 (282)
T 4f3v_A          175 VAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVAA  245 (282)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHH
Confidence            7888899999999999999999986543253  346777888999999999999999999886  45533333

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.07  E-value=0.00022  Score=68.60  Aligned_cols=165  Identities=10%  Similarity=0.009  Sum_probs=107.6

Q ss_pred             HHHHHHHHHHccCCHHHHH-HHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC---------CCCC--
Q 045379          121 VSILLIEAYGQKSLHKKAE-FTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG---------LPPS--  188 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~-~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---------~~~~--  188 (352)
                      .|-..+..+.+.|+.++|. ++|++.... ++.+...|...+...-+.|+++.|.++|+.+.+..         ..|+  
T Consensus       345 lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~  423 (679)
T 4e6h_A          345 IWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNE  423 (679)
T ss_dssp             HHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcch
Confidence            6666777777778777786 888777653 33456666777777777888888888888776531         0131  


Q ss_pred             ----------HHHHHHHHHHHHcCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCC
Q 045379          189 ----------AVVYNSYIDGLLKGGNPQKAVEIFQRMKRD-CCQPSTETYTLMINLYGKA-SKSFMALKLFNEMRSHKCK  256 (352)
Q Consensus       189 ----------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~-g~~~~a~~l~~~m~~~g~~  256 (352)
                                ..+|...+....+.|..+.|..+|.+..+. +. ++...|-.....-.+. ++.+.|.++|+...+. .+
T Consensus       424 ~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~-~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p  501 (679)
T 4e6h_A          424 SAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKL-VTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FA  501 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGG-SCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HT
T ss_pred             hhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CC
Confidence                      235666777777778888888888887765 21 1222332222222233 4578888888877664 33


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          257 PNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       257 p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      -+...|...+......|+.+.|..+|++....
T Consensus       502 ~~~~~w~~y~~fe~~~~~~~~AR~lferal~~  533 (679)
T 4e6h_A          502 TDGEYINKYLDFLIYVNEESQVKSLFESSIDK  533 (679)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTT
T ss_pred             CchHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            35556667777777778888888888887754

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.00  E-value=9.1e-05  Score=54.52  Aligned_cols=91  Identities=16%  Similarity=0.061  Sum_probs=48.7

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 045379          195 YIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGL  274 (352)
Q Consensus       195 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~  274 (352)
                      +...+.+.|++++|...|++..+.. +.+...|..+-.++...|++++|+..|++..+.. +-+...+..+..++...|+
T Consensus        23 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~  100 (121)
T 1hxi_A           23 EGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN  100 (121)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            3344555555555555555555442 2245555555555555666666666665555432 1234455555555556666


Q ss_pred             HHHHHHHHHHHHH
Q 045379          275 CEEAEEIFEQLQG  287 (352)
Q Consensus       275 ~~~a~~l~~~m~~  287 (352)
                      +++|...+++..+
T Consensus       101 ~~~A~~~~~~al~  113 (121)
T 1hxi_A          101 ANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666655543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.96  E-value=0.00036  Score=51.28  Aligned_cols=93  Identities=16%  Similarity=0.091  Sum_probs=53.8

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHH
Q 045379          125 LIEAYGQKSLHKKAEFTYLELLDSRCIPT--EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS---AVVYNSYIDGL  199 (352)
Q Consensus       125 li~~~~~~g~~~~a~~l~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~  199 (352)
                      +...+.+.|++++|.+.|+...+......  ...+..+..++...|++++|...|++..+.. +.+   ...+..+..+|
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHH
Confidence            34455666777777777766665332111  1355556666666666666666666665542 112   44455566666


Q ss_pred             HcCCCHHHHHHHHHHHHHc
Q 045379          200 LKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~  218 (352)
                      ...|++++|...|++..+.
T Consensus        87 ~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            6666666666666666554

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.96  E-value=0.00014  Score=53.56  Aligned_cols=92  Identities=9%  Similarity=-0.073  Sum_probs=49.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 045379          159 LLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKAS  238 (352)
Q Consensus       159 ~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  238 (352)
                      .+...+.+.|++++|...+++..+.. +.+...+..+..++...|++++|...|++..+.. +-+...+..+..++...|
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            33444555555555555555555432 2344555555555555666666666665555542 224455555555666666


Q ss_pred             CHHHHHHHHHHHHh
Q 045379          239 KSFMALKLFNEMRS  252 (352)
Q Consensus       239 ~~~~a~~l~~~m~~  252 (352)
                      ++++|+..+++..+
T Consensus       100 ~~~~A~~~~~~al~  113 (121)
T 1hxi_A          100 NANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHH
Confidence            66666666655543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.95  E-value=1.7e-05  Score=57.97  Aligned_cols=84  Identities=12%  Similarity=0.048  Sum_probs=38.4

Q ss_pred             cCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          167 SGLLEKAEAVFREMRKYG--LPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMAL  244 (352)
Q Consensus       167 ~g~~~~a~~~~~~m~~~g--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  244 (352)
                      .|++++|+..|++..+.+  -+.+...+..+...|...|++++|...|++..+.. +-+...+..+..++...|++++|+
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            345555555555555432  12223444445555555555555555555554432 223444445555555555555555


Q ss_pred             HHHHHHH
Q 045379          245 KLFNEMR  251 (352)
Q Consensus       245 ~l~~~m~  251 (352)
                      ..|++..
T Consensus        82 ~~~~~al   88 (117)
T 3k9i_A           82 ELLLKII   88 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555444

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.95  E-value=0.00014  Score=66.86  Aligned_cols=122  Identities=10%  Similarity=-0.079  Sum_probs=80.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPT--------------EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLP  186 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~--------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  186 (352)
                      .|..+...+.+.|++++|...|.+..+......              ...|..+..++.+.|++++|+..+++..+.. +
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  348 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-S  348 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-C
Confidence            788888999999999999999999886432211              4566666667777777777777777666543 3


Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          187 PSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMAL  244 (352)
Q Consensus       187 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  244 (352)
                      .+...|..+..+|...|++++|...|++..+.. +-+...+..+..++.+.++.+++.
T Consensus       349 ~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          349 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            355666666666677777777777776666542 223445666666666666665554

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.94  E-value=0.00022  Score=65.51  Aligned_cols=132  Identities=11%  Similarity=-0.041  Sum_probs=105.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--------------HHHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS--------------AVVYNSYIDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~--------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      ....|..+...+.+.|++++|...|++..+..-...              ...|..+..+|.+.|++++|...|++.++.
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            345788888999999999999999999887421111              588899999999999999999999999886


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH-HHHHHH
Q 045379          219 CCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEE-IFEQLQ  286 (352)
Q Consensus       219 ~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~-l~~~m~  286 (352)
                      . +.+...|..+-.+|...|++++|+..|++..+.. +-+...+..+..++.+.++.+++.+ ++..|.
T Consensus       347 ~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          347 D-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             C-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4 4478899999999999999999999999998753 2344578888888888888887764 445443

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.92  E-value=3.4e-05  Score=71.43  Aligned_cols=121  Identities=10%  Similarity=-0.079  Sum_probs=96.0

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC
Q 045379          125 LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGN  204 (352)
Q Consensus       125 li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  204 (352)
                      +...+.+.|++++|.+.|++..+... -+..+|..+..++.+.|++++|.+.+++..+.. +.+...+..+..+|...|+
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            34456788999999999999987542 358899999999999999999999999999874 4567889999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HHhcCCHHHHHHHHH
Q 045379          205 PQKAVEIFQRMKRDCCQPSTETYTLMINL--YGKASKSFMALKLFN  248 (352)
Q Consensus       205 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~--~~~~g~~~~a~~l~~  248 (352)
                      +++|.+.|++..+.. +.+...+..+..+  +.+.|++++|++.++
T Consensus        90 ~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           90 FRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999988763 2234455555555  888899999999988

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.92  E-value=0.00053  Score=50.35  Aligned_cols=92  Identities=10%  Similarity=-0.029  Sum_probs=51.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHH
Q 045379          160 LLKAYCMSGLLEKAEAVFREMRKYGLPPSA---VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPS---TETYTLMINL  233 (352)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~~g~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~  233 (352)
                      +...+...|++++|...|++..+..- .+.   ..+..+..++.+.|++++|...|++..+.. +.+   ..++..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHH
Confidence            34455566666666666666655321 111   355555566666666666666666665542 112   4455556666


Q ss_pred             HHhcCCHHHHHHHHHHHHhC
Q 045379          234 YGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       234 ~~~~g~~~~a~~l~~~m~~~  253 (352)
                      +...|++++|...|++....
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            66666666666666665543

>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=97.91  E-value=0.0015  Score=57.17  Aligned_cols=219  Identities=11%  Similarity=0.010  Sum_probs=148.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhh-ccCcchhhHHhH--------HHHHHHHHHHcc-
Q 045379           67 QQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRL-NKKWDPIVLMSC--------VSILLIEAYGQK-  132 (352)
Q Consensus        67 ~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~-~~~~~~~~~~~~--------~~~~li~~~~~~-  132 (352)
                      +.+-....+.+..++|+++++++    |.+...|+.-..++...+. .++....+..+.        +|+.-.-.+.+. 
T Consensus        58 ~~~r~~~~~~e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~  137 (349)
T 3q7a_A           58 DYFRAIAAKEEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRIS  137 (349)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhc
Confidence            44444445566667888888765    3567778877777666552 222222222221        777766666665 


Q ss_pred             C-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH--------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC
Q 045379          133 S-LHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLE--------KAEAVFREMRKYGLPPSAVVYNSYIDGLLKGG  203 (352)
Q Consensus       133 g-~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~--------~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  203 (352)
                      + ++++++++++.+.+...+ |..+|+--.-...+.|.++        ++++.++++.+.. +-|...|+..-..+.+.+
T Consensus       138 ~~~~~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~  215 (349)
T 3q7a_A          138 PQDPVSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRP  215 (349)
T ss_dssp             CSCCHHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTST
T ss_pred             CCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcc
Confidence            6 889999999999876543 7778877666666666666        8888999888875 457788888877777777


Q ss_pred             C-------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH--------------------HHHHHHHHHHHhCC--
Q 045379          204 N-------PQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKS--------------------FMALKLFNEMRSHK--  254 (352)
Q Consensus       204 ~-------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~--------------------~~a~~l~~~m~~~g--  254 (352)
                      +       ++++++.+++..... +-|...|+-+-..+.+.|+.                    .+..+...++...+  
T Consensus       216 ~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  294 (349)
T 3q7a_A          216 GAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLP  294 (349)
T ss_dssp             TCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCC
T ss_pred             ccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccc
Confidence            6       688888888888764 44788888877777766654                    23333333333221  


Q ss_pred             ---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          255 ---CKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       255 ---~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                         -.++...+..++..|...|+.++|.++++.+.+.
T Consensus       295 ~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          295 EDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             SSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             cccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence               1367778899999999999999999999998643

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.88  E-value=3.8e-05  Score=71.07  Aligned_cols=120  Identities=14%  Similarity=0.022  Sum_probs=94.5

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 045379          161 LKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKS  240 (352)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  240 (352)
                      ...+.+.|++++|.+.+++..+.. +.+...+..+..+|.+.|++++|...+++..+.. +.+..++..+..+|...|++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            344667899999999999998863 4568899999999999999999999999998874 44688999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCCHHHHHHHHH
Q 045379          241 FMALKLFNEMRSHKCKPNICTYTALVNA--FAREGLCEEAEEIFE  283 (352)
Q Consensus       241 ~~a~~l~~~m~~~g~~p~~~t~~~li~~--~~~~g~~~~a~~l~~  283 (352)
                      ++|++.|++..+.. +-+...+..+..+  +.+.|++++|.+.++
T Consensus        91 ~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999987753 1233345555444  888999999999988

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.87  E-value=0.00023  Score=63.49  Aligned_cols=137  Identities=10%  Similarity=-0.069  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|..+...+.+.|++++|++.|++..+.-  |+.          ......+.+.+       . -+.+...|..+..+|.
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~~----------~~~~~~~~~~~-------~-~~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYV--EGS----------RAAAEDADGAK-------L-QPVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHH----------HHHSCHHHHGG-------G-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHh--hcC----------ccccChHHHHH-------H-HHHHHHHHHHHHHHHH
Confidence            67778888888888888888888776510  000          00000000000       0 0112344555555555


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  279 (352)
                      +.|++++|...+++..+.. +.+...+..+..+|...|++++|++.|++..+.. +-+...+..+...+...++.+++.
T Consensus       285 ~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555432 2234455555555555555555555555554431 123444444445555555544443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.86  E-value=0.00044  Score=62.56  Aligned_cols=207  Identities=10%  Similarity=-0.055  Sum_probs=116.4

Q ss_pred             HHHHHhcCCHHHHHHHhcCCC---Cc-hhhHHHHHHHHHHHhhccCcch-hhHHhHHHHHHHHHHHccCCHHHHHHHHHH
Q 045379           70 LRFVQREVDSNTIWDAFDSLP---PT-HATWDDLINVSVQLRLNKKWDP-IVLMSCVSILLIEAYGQKSLHKKAEFTYLE  144 (352)
Q Consensus        70 ~~~~~~~g~~~~A~~~~~~~~---~~-~~~~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~l~~~  144 (352)
                      ...+.+.|++++|.+.|..+.   ++ ......          ...... .-....++..+...|.+.|++++|.+.+..
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~----------~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~   80 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAG----------ASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPH   80 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSS----------SSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHH----------HHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            455678899999988886542   11 000000          000000 000111456677777777888888777776


Q ss_pred             HHhCC-CCCCHH----HHHHHHHHHHHcCCHHHHHHHHHHHHH----CCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHH
Q 045379          145 LLDSR-CIPTED----TYALLLKAYCMSGLLEKAEAVFREMRK----YGLPP-SAVVYNSYIDGLLKGGNPQKAVEIFQR  214 (352)
Q Consensus       145 m~~~~-~~p~~~----~~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~  214 (352)
                      +...- -.++..    +.+.+-..+...|+++.+.+++.....    .+..+ -..++..+...|...|++++|..++++
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~  160 (434)
T 4b4t_Q           81 STEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALIND  160 (434)
T ss_dssp             THHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHH
Confidence            65321 112221    222222333446777777777766543    22222 245666777777777888888777777


Q ss_pred             HHHc--CC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHH
Q 045379          215 MKRD--CC---QPSTETYTLMINLYGKASKSFMALKLFNEMRS----HKCKPN--ICTYTALVNAFAREGLCEEAEEIFE  283 (352)
Q Consensus       215 m~~~--~~---~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~----~g~~p~--~~t~~~li~~~~~~g~~~~a~~l~~  283 (352)
                      ....  +.   +....++..++..|...|++++|..++++...    .+.+|.  ...+..+...+...|++++|...|.
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~  240 (434)
T 4b4t_Q          161 LLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFF  240 (434)
T ss_dssp             HHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHH
T ss_pred             HHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            6542  11   11245677777777788888887777776543    121111  2345666666777777777777776


Q ss_pred             HHH
Q 045379          284 QLQ  286 (352)
Q Consensus       284 ~m~  286 (352)
                      +..
T Consensus       241 ~a~  243 (434)
T 4b4t_Q          241 ESF  243 (434)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            664

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.83  E-value=0.00026  Score=63.09  Aligned_cols=127  Identities=11%  Similarity=-0.050  Sum_probs=86.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYG  235 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  235 (352)
                      .+..+...+.+.|++++|.+.|++..+.-  ++   .       .....       .++..+. -+.+..+|..+..+|.
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~---~-------~~~~~-------~~~~~~~-~~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYV--EG---S-------RAAAE-------DADGAKL-QPVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HH---H-------HHHSC-------HHHHGGG-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHh--hc---C-------ccccC-------hHHHHHH-HHHHHHHHHHHHHHHH
Confidence            45566667777777777777777665420  00   0       00000       1111111 0225678999999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHH
Q 045379          236 KASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEP-DVYAYNALMEAYR  305 (352)
Q Consensus       236 ~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-~~~~~~~li~a~~  305 (352)
                      +.|++++|++.+++..+.. +-+...|..+..+|...|++++|...|++..+.  .| +...+..+-.++.
T Consensus       285 ~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~  352 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQ  352 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            9999999999999998763 346788999999999999999999999999875  34 4455555554444

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.82  E-value=3.9e-05  Score=55.98  Aligned_cols=85  Identities=22%  Similarity=0.165  Sum_probs=44.2

Q ss_pred             cCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHH
Q 045379          132 KSLHKKAEFTYLELLDSRC--IPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAV  209 (352)
Q Consensus       132 ~g~~~~a~~l~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~  209 (352)
                      .|++++|+..|++..+.+.  +-+...+..+..++...|++++|...|++..+.. +.+...+..+..++...|++++|.
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            4555666666666555431  1123355555556666666666666666655542 233455555555666666666666


Q ss_pred             HHHHHHHH
Q 045379          210 EIFQRMKR  217 (352)
Q Consensus       210 ~~~~~m~~  217 (352)
                      ..|++..+
T Consensus        82 ~~~~~al~   89 (117)
T 3k9i_A           82 ELLLKIIA   89 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66665544

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.79  E-value=0.00044  Score=53.41  Aligned_cols=98  Identities=16%  Similarity=0.011  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhC-------CCC---------C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 045379          120 CVSILLIEAYGQKSLHKKAEFTYLELLDS-------RCI---------P-TEDTYALLLKAYCMSGLLEKAEAVFREMRK  182 (352)
Q Consensus       120 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~-------~~~---------p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  182 (352)
                      ..+......+.+.|++++|.+.|.+..+.       .-+         | +...|..+..++.+.|++++|...+++..+
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            36677778888888888888888887653       000         1 123555555666666666666666666555


Q ss_pred             CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 045379          183 YGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       183 ~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      .. +.+...|..+..+|...|++++|...|++..+.
T Consensus        92 ~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           92 RE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            42 334555555666666666666666666655554

>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=97.76  E-value=0.0018  Score=48.72  Aligned_cols=110  Identities=13%  Similarity=-0.025  Sum_probs=64.1

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHH
Q 045379          169 LLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGK----ASKSFMAL  244 (352)
Q Consensus       169 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~  244 (352)
                      ++++|.+.|++..+.|. |...    +-..|...+.+++|.+.|++..+.|   +...+..|-..|..    .+++++|.
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 DLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            45556666666555552 2222    4444445555566666666665543   45556666666655    56666666


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCC
Q 045379          245 KLFNEMRSHKCKPNICTYTALVNAFAR----EGLCEEAEEIFEQLQGAG  289 (352)
Q Consensus       245 ~l~~~m~~~g~~p~~~t~~~li~~~~~----~g~~~~a~~l~~~m~~~~  289 (352)
                      +.|++..+.|   +...+..|-..|..    .++.++|.++|++..+.|
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            6666666554   45556666666666    666666666666666654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.75  E-value=0.00049  Score=53.11  Aligned_cols=63  Identities=19%  Similarity=0.050  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          225 ETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       225 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      ..|..+..+|.+.|++++|+..+++..... +.+...|..+..+|...|++++|...|.+..+.
T Consensus        64 ~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           64 PLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            455555666666666666666666655432 234555666666666666666666666665543

>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=97.72  E-value=0.019  Score=50.26  Aligned_cols=215  Identities=12%  Similarity=-0.030  Sum_probs=120.5

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSG-LLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK  201 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  201 (352)
                      +.+-....+.+..++|+++++.+...+.. +..+|+.--.++...| .+++++++++.+.+.. +-+..+|+.--..+.+
T Consensus        58 ~~~r~~~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~  135 (349)
T 3q7a_A           58 DYFRAIAAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDR  135 (349)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHH
Confidence            33333444455556677777777664432 4445666555555666 4677777777766653 3445555555444444


Q ss_pred             C-C-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH--------HHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 045379          202 G-G-NPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSF--------MALKLFNEMRSHKCKPNICTYTALVNAFAR  271 (352)
Q Consensus       202 ~-g-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~--------~a~~l~~~m~~~g~~p~~~t~~~li~~~~~  271 (352)
                      . + ++++++.+++++.+.. +-+..+|+.-.-...+.|.++        ++++.++++.+.. .-|...|+.....+.+
T Consensus       136 l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~  213 (349)
T 3q7a_A          136 ISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVS  213 (349)
T ss_dssp             HCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTT
T ss_pred             hcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence            4 4 6667777777666553 235566655444444433343        6666666666543 2355566666655555


Q ss_pred             cCC-------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH------------------------------HHHHH-hc-
Q 045379          272 EGL-------CEEAEEIFEQLQGAGIEPDVYAYNALMEAYR------------------------------LISRM-HM-  312 (352)
Q Consensus       272 ~g~-------~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~------------------------------~~~~m-~~-  312 (352)
                      .++       ++++++.+.+..... .-|...|+-+-..+.                              ....+ .. 
T Consensus       214 l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  292 (349)
T 3q7a_A          214 RPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDP  292 (349)
T ss_dssp             STTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-C
T ss_pred             ccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcc
Confidence            554       566666666655431 123333333221111                              00001 00 


Q ss_pred             ----CCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          313 ----GCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       313 ----~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                          .-.++......|++.|...|+.++|.+++.
T Consensus       293 ~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~  326 (349)
T 3q7a_A          293 LPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFE  326 (349)
T ss_dssp             CCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence                114678889999999999999999999986

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.65  E-value=0.00019  Score=63.15  Aligned_cols=146  Identities=8%  Similarity=-0.001  Sum_probs=83.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .+..+...+.+.|++++|...|.+.....  |+...       +...|+.+++...+.          ...|..+..+|.
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~~  241 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHHH
Confidence            78888899999999999999999987632  44331       222333444332221          147788888899


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHH-HHhcCCHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN-ICTYTALVNA-FAREGLCEEA  278 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~-~~t~~~li~~-~~~~g~~~~a  278 (352)
                      +.|++++|...+++..+.. +.+...|..+..+|...|++++|...|++..+.  .|+ ...+..+... ....+..+++
T Consensus       242 ~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             TTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999887763 346788888999999999999999999888654  343 3344444444 3345677788


Q ss_pred             HHHHHHHHHC
Q 045379          279 EEIFEQLQGA  288 (352)
Q Consensus       279 ~~l~~~m~~~  288 (352)
                      ..+|..|...
T Consensus       319 ~~~~~~~l~~  328 (338)
T 2if4_A          319 KEMYKGIFKG  328 (338)
T ss_dssp             ----------
T ss_pred             HHHHHHhhCC
Confidence            8888888654

>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=97.63  E-value=0.00088  Score=50.44  Aligned_cols=114  Identities=12%  Similarity=-0.087  Sum_probs=95.9

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCCHH
Q 045379          131 QKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK----GGNPQ  206 (352)
Q Consensus       131 ~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~  206 (352)
                      ..+++++|.+.|++..+.|. |+..    +-..|...+.+++|.+.|++..+.|   +...+..|-..|..    .++++
T Consensus         7 ~~~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~   78 (138)
T 1klx_A            7 VKKDLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLR   78 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             CccCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHH
Confidence            34578999999999998873 4444    6666777778899999999999876   56788888888888    88999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCC
Q 045379          207 KAVEIFQRMKRDCCQPSTETYTLMINLYGK----ASKSFMALKLFNEMRSHKC  255 (352)
Q Consensus       207 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~g~  255 (352)
                      +|...|++..+.|   +...+..|-..|..    .++.++|.+.|++..+.|.
T Consensus        79 ~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           79 KAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            9999999998876   67888899999988    8999999999999988763

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.63  E-value=0.036  Score=51.22  Aligned_cols=265  Identities=13%  Similarity=0.059  Sum_probs=137.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhcCCC---CchhhHHHHHHHHHHHhh-ccCcchhhHHh-----------HHHHHHHHH
Q 045379           64 PTAQQILRFVQREVDSNTIWDAFDSLP---PTHATWDDLINVSVQLRL-NKKWDPIVLMS-----------CVSILLIEA  128 (352)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~l~~~~~~~~~-~~~~~~~~~~~-----------~~~~~li~~  128 (352)
                      .++...+..+-. |+++.|..+|++..   |++..|...++...+.+. .+.+..+++..           ..|...+..
T Consensus        16 ~vyer~l~~~P~-~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f   94 (493)
T 2uy1_A           16 AIMEHARRLYMS-KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEE   94 (493)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCC-CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHH
Confidence            366777777655 88999999998643   788899988887766553 22233222221           267766665


Q ss_pred             HH----ccCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHH-----------------------------------------
Q 045379          129 YG----QKSLHKKAEFTYLELLDSRCIPTED-TYALLLK-----------------------------------------  162 (352)
Q Consensus       129 ~~----~~g~~~~a~~l~~~m~~~~~~p~~~-~~~~li~-----------------------------------------  162 (352)
                      +.    .+|+++.+.++|+......+ .+.. .|.....                                         
T Consensus        95 ~~~~~~~~~~~~~vR~iy~rAL~~P~-~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~  173 (493)
T 2uy1_A           95 EGKIEDEQTRIEKIRNGYMRALQTPM-GSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVK  173 (493)
T ss_dssp             TSSCSSHHHHHHHHHHHHHHHHTSCC-TTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHH
T ss_pred             HHhchhhhHHHHHHHHHHHHHHhChh-hhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHH
Confidence            44    24678889999998887311 1111 2211111                                         


Q ss_pred             ---HHHH--cCC---------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 045379          163 ---AYCM--SGL---------LEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYT  228 (352)
Q Consensus       163 ---~~~~--~g~---------~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  228 (352)
                         .|..  .++         .+.+..+|+++... ++.+...|-..+..+.+.|+.+.|..+|++....  +.+...|.
T Consensus       174 ~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~  250 (493)
T 2uy1_A          174 NAARLIDLEMENGMKLGGRPHESRMHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL  250 (493)
T ss_dssp             HHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH
T ss_pred             HHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH
Confidence               0000  011         12334455555443 2344566666666677778888888888877776  33332222


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC---------CCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 045379          229 LMINLYGKASKSFMALKLFNEMRSH---------KCK---PNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYA  296 (352)
Q Consensus       229 ~li~~~~~~g~~~~a~~l~~~m~~~---------g~~---p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~  296 (352)
                          .|+...+.++.   ++.+.+.         +..   .....|...+....+.++.+.|..+|.+. +.. .++...
T Consensus       251 ----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v  321 (493)
T 2uy1_A          251 ----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHV  321 (493)
T ss_dssp             ----HHHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHH
T ss_pred             ----HHHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHH
Confidence                12221111111   1111110         000   01234555555555677788888888877 221 123333


Q ss_pred             HH--HHHHHH---------HHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          297 YN--ALMEAY---------RLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       297 ~~--~li~a~---------~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      |.  +.+...         .+|+.....++-+...+...++-..+.|+.+.|..+|.
T Consensus       322 ~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~e  378 (493)
T 2uy1_A          322 FIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFK  378 (493)
T ss_dssp             HHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            32  222221         15555522222234445556666667777777776664

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.61  E-value=0.00025  Score=62.36  Aligned_cols=114  Identities=16%  Similarity=0.016  Sum_probs=84.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 045379          155 DTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLY  234 (352)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  234 (352)
                      ..+..+...+.+.|++++|...|++..+.  .|+...       +...++.+++...+   .       ...|..+..+|
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l---~-------~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV---K-------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH---H-------THHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH---H-------HHHHHHHHHHH
Confidence            34666677778888999999988887664  233221       22334444443322   1       23788999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          235 GKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       235 ~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      .+.|++++|+..+++..+.. +.+...|..+..+|...|++++|...|++..+.
T Consensus       241 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l  293 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY  293 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999988753 346789999999999999999999999998754

>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=97.58  E-value=0.0011  Score=50.92  Aligned_cols=62  Identities=10%  Similarity=-0.079  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-C-----CH-----HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCI-P-----TE-----DTYALLLKAYCMSGLLEKAEAVFREMRK  182 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~-p-----~~-----~~~~~li~~~~~~g~~~~a~~~~~~m~~  182 (352)
                      .+......+.+.|++++|++.|++..+.... |     +.     ..|..+-.++.+.|++++|+..+++..+
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 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALH   85 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4555667778889999999999888764322 1     11     2555666666666666666666555544

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.55  E-value=0.00054  Score=48.72  Aligned_cols=65  Identities=15%  Similarity=0.044  Sum_probs=42.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          223 STETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       223 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      +...+..+...+...|++++|++.|++..+.. +.+...+..+..++.+.|++++|.+.+++..+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34556666666677777777777777665542 235566666777777777777777777776643

>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=97.52  E-value=0.0022  Score=49.29  Aligned_cols=62  Identities=11%  Similarity=0.028  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-C-----CH-----HHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLP-P-----SA-----VVYNSYIDGLLKGGNPQKAVEIFQRMKR  217 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~-----~~-----~~~~~li~~~~~~g~~~~a~~~~~~m~~  217 (352)
                      .+......+.+.|++++|...|++..+..-. |     +.     ..|..+-.++.+.|++++|+..+++.++
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 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALH   85 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4455556677778888888888777653211 1     11     1444444455555555555555544443

>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=97.44  E-value=0.022  Score=53.73  Aligned_cols=178  Identities=10%  Similarity=0.015  Sum_probs=137.3

Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          130 GQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGL----------LEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       130 ~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      ......++|++.++++.+.... +..+|+.--.++...|+          ++++.++++.+.+.. +-+..+|+.-...+
T Consensus        40 ~~~~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l  117 (567)
T 1dce_A           40 QAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLL  117 (567)
T ss_dssp             HTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            3445557889999999986542 56678777677777776          899999999998864 45778888888888


Q ss_pred             HcCC--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----
Q 045379          200 LKGG--NPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKAS-KSFMALKLFNEMRSHKCKPNICTYTALVNAFARE----  272 (352)
Q Consensus       200 ~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~----  272 (352)
                      .+.+  +++++.+.++++.+.. +-+..+|+.---...+.| .++++++.++++.+.. .-|...|+.....+.+.    
T Consensus       118 ~~l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~  195 (567)
T 1dce_A          118 SRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQP  195 (567)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCC
T ss_pred             HHcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhcccc
Confidence            8999  7799999999999875 348889998888888888 8999999999998764 34777888877776663    


Q ss_pred             ----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcch
Q 045379          273 ----------GLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEG  336 (352)
Q Consensus       273 ----------g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~  336 (352)
                                +.++++++.+.+....  .                       +-|...|..+-..+.+.|+.++
T Consensus       196 ~~~~~~~~~~~~~~eel~~~~~ai~~--~-----------------------P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          196 DSGPQGRLPENVLLKELELVQNAFFT--D-----------------------PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CSSSCCSSCHHHHHHHHHHHHHHHHH--C-----------------------SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccccccHHHHHHHHHHHHHHHhh--C-----------------------CCCccHHHHHHHHHhcCCCccc
Confidence                      4567777777776643  2                       3377778888778887777655

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.40  E-value=0.00087  Score=47.60  Aligned_cols=64  Identities=13%  Similarity=0.038  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          189 AVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       189 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      ...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|++.+++..+.
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            3455555666666666666666666665542 234556666666666666666666666666554

>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=97.38  E-value=0.00061  Score=61.90  Aligned_cols=87  Identities=10%  Similarity=-0.024  Sum_probs=69.3

Q ss_pred             cCCCHHHHHHHHHHHHHc-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CC-CCCC-HHHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRD-------CCQPSTETYTLMINLYGKASKSFMALKLFNEMRS-----HK-CKPN-ICTYTALV  266 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~-------~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~-----~g-~~p~-~~t~~~li  266 (352)
                      ..|++++|+.++++.++.       .++....+++.|..+|...|++++|+.++++..+     .| -.|+ ..+++.|.
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            467899999999987652       1222357899999999999999999999998754     23 1233 45799999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 045379          267 NAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       267 ~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      ..|..+|++++|+.++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999998764

>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=97.36  E-value=0.00088  Score=60.87  Aligned_cols=90  Identities=7%  Similarity=-0.108  Sum_probs=56.3

Q ss_pred             HHHHcCCCHHHHHHHHHHHHHc-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CC--CCCCHHHH
Q 045379          197 DGLLKGGNPQKAVEIFQRMKRD-------CCQPSTETYTLMINLYGKASKSFMALKLFNEMRS-----HK--CKPNICTY  262 (352)
Q Consensus       197 ~~~~~~g~~~~a~~~~~~m~~~-------~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~-----~g--~~p~~~t~  262 (352)
                      ..+.++|++++|+.++++..+.       .++....+++.|..+|...|++++|+.++++...     .|  .+-...++
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            3455666777777777766542       1122345677777777777777777777776543     12  11223457


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          263 TALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       263 ~~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                      +.|...|..+|++++|+.++++..
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH
Confidence            777777777777777777777664

>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=0.00046  Score=62.75  Aligned_cols=87  Identities=7%  Similarity=-0.101  Sum_probs=69.8

Q ss_pred             HcCCHHHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc-----C--CCCCHHHHHHHH
Q 045379          166 MSGLLEKAEAVFREMRKY-------GLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD-----C--CQPSTETYTLMI  231 (352)
Q Consensus       166 ~~g~~~~a~~~~~~m~~~-------g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~--~~~~~~~~~~li  231 (352)
                      ..|++++|+.++++..+.       ..+....+++.|...|..+|++++|+.++++.++.     |  ++-...+++.|-
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            357899999999887652       22334688999999999999999999999987652     2  233456799999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh
Q 045379          232 NLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       232 ~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      ..|...|++++|+.++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999988754

>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=97.33  E-value=0.0012  Score=59.95  Aligned_cols=97  Identities=11%  Similarity=-0.084  Sum_probs=76.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHC---CC----CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc-------CCC
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKY---GL----PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD-------CCQ  221 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------~~~  221 (352)
                      .....+..+.++|++++|+.++++..+.   -+    +....+++.+...|..+|++++|+.++++.++.       .++
T Consensus       289 ~ll~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp  368 (429)
T 3qwp_A          289 ESLKKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHP  368 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCCh
Confidence            3344466677889999999999988753   12    224678899999999999999999999987642       222


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          222 PSTETYTLMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       222 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      ....+++.|...|...|++++|+.++++..+
T Consensus       369 ~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          369 VRGVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            3356789999999999999999999998876

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.31  E-value=0.002  Score=46.35  Aligned_cols=63  Identities=11%  Similarity=0.014  Sum_probs=28.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          223 STETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQ  286 (352)
Q Consensus       223 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~  286 (352)
                      +...+..+...|...|++++|+..|++..+.. +.+...|..+..+|...|++++|...|++..
T Consensus        18 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A           18 NMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444444444444455555554444444321 1223344444444555555555555554443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.27  E-value=0.0061  Score=41.23  Aligned_cols=61  Identities=20%  Similarity=0.309  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 045379          156 TYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKR  217 (352)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  217 (352)
                      .+..+...+...|++++|...+++..+.. +.+...+..+...|.+.|++++|...|++..+
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            33444444444444444444444443321 12233344444444444444444444444433

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.26  E-value=0.0054  Score=41.47  Aligned_cols=80  Identities=18%  Similarity=0.149  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 045379          190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAF  269 (352)
Q Consensus       190 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~  269 (352)
                      ..+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|.+.|++..+.. +.+...+..+...+
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~   87 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            445555666666666666666666665542 2345566666666666666666666666665432 22344555555544


Q ss_pred             Hh
Q 045379          270 AR  271 (352)
Q Consensus       270 ~~  271 (352)
                      .+
T Consensus        88 ~~   89 (91)
T 1na3_A           88 QK   89 (91)
T ss_dssp             HH
T ss_pred             Hh
Confidence            43

>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=97.25  E-value=0.084  Score=45.87  Aligned_cols=176  Identities=9%  Similarity=-0.023  Sum_probs=83.2

Q ss_pred             HhcCCHH-HHHHHhcCC----CCchhhHHHHHHHHHHHhhccC-------cch---hhHHhH--------HHHHHHHHHH
Q 045379           74 QREVDSN-TIWDAFDSL----PPTHATWDDLINVSVQLRLNKK-------WDP---IVLMSC--------VSILLIEAYG  130 (352)
Q Consensus        74 ~~~g~~~-~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~-------~~~---~~~~~~--------~~~~li~~~~  130 (352)
                      .+.|+++ +|+.+++.+    |.+...|+.=-.++...+....       ..+   .+..+.        +|+--.-.+.
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~  119 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS  119 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHh
Confidence            3456555 677766654    3556677765555544443100       000   000000        4444444444


Q ss_pred             ccC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC-----
Q 045379          131 QKS--LHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGL-LEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKG-----  202 (352)
Q Consensus       131 ~~g--~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-----  202 (352)
                      +.|  ++++++.+++.+.+... -|..+|+--.-.....|. ++++++.++.+.+.. +-|...|+.....+.+.     
T Consensus       120 ~l~~~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          120 RLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSCCC-
T ss_pred             ccCcccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhhccc
Confidence            444  35566666666655443 255555555555555555 355556555555543 23444444433333322     


Q ss_pred             ---------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHh
Q 045379          203 ---------GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKA-----------SKSFMALKLFNEMRS  252 (352)
Q Consensus       203 ---------g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-----------g~~~~a~~l~~~m~~  252 (352)
                               +.++++.+.+.+..... +-|..+|+-+-..+.+.           +.++++++.++++.+
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle  266 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQE  266 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHh
Confidence                     23455555555555442 23455554433333333           234555555555554

>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=97.22  E-value=0.09  Score=45.66  Aligned_cols=150  Identities=7%  Similarity=-0.079  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC-HHHHHHH
Q 045379          135 HKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSG--LLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGN-PQKAVEI  211 (352)
Q Consensus       135 ~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~-~~~a~~~  211 (352)
                      +++++.+++.+....++ +..+|+.---.+...|  .+++++++++.+.+.. +-|-..|+.--..+...|. ++++.+.
T Consensus        90 l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            56777777777765443 6667777666666666  3778888888877764 4566677766666666776 5778888


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhc--------------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----
Q 045379          212 FQRMKRDCCQPSTETYTLMINLYGKA--------------SKSFMALKLFNEMRSHKCKPNICTYTALVNAFARE-----  272 (352)
Q Consensus       212 ~~~m~~~~~~~~~~~~~~li~~~~~~--------------g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~-----  272 (352)
                      ++++.+.. +-|..+|+.....+.+.              +.++++++.+.+..... +-|...|+-+-..+.+.     
T Consensus       168 ~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~  245 (331)
T 3dss_A          168 TDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCE  245 (331)
T ss_dssp             HHHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGG
T ss_pred             HHHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccc
Confidence            88877765 34677777665555444              34677777777776542 34555665444444333     


Q ss_pred             ------CCHHHHHHHHHHHHHC
Q 045379          273 ------GLCEEAEEIFEQLQGA  288 (352)
Q Consensus       273 ------g~~~~a~~l~~~m~~~  288 (352)
                            +.++++++.++++.+.
T Consensus       246 ~~~~~~~~l~~el~~~~elle~  267 (331)
T 3dss_A          246 LSVEKSTVLQSELESCKELQEL  267 (331)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHhh
Confidence                  3467777777777654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.20  E-value=0.0029  Score=45.45  Aligned_cols=77  Identities=14%  Similarity=0.080  Sum_probs=37.9

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 045379          138 AEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMK  216 (352)
Q Consensus       138 a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  216 (352)
                      |++.|++..+... .+...+..+...+...|++++|...+++..+.. +.+...+..+..+|...|++++|...|++..
T Consensus         4 a~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            4 ITERLEAMLAQGT-DNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHTTTC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4444444444322 234455555555555555555555555554432 2234445555555555555555555555444

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.97  E-value=0.0056  Score=42.87  Aligned_cols=63  Identities=16%  Similarity=0.214  Sum_probs=35.6

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          188 SAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMR  251 (352)
Q Consensus       188 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~  251 (352)
                      +...+..+...|...|++++|...|++..+.. +.+...|..+..+|...|++++|.+.|++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44555555566666666666666666655542 2234455556666666666666666655544

>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=96.96  E-value=0.025  Score=53.34  Aligned_cols=139  Identities=6%  Similarity=-0.092  Sum_probs=111.6

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC-CHHHHHHH
Q 045379          135 HKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSG--LLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGG-NPQKAVEI  211 (352)
Q Consensus       135 ~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~  211 (352)
                      ++++++.++.+.+...+ +..+|+.---++.+.|  +++++++.++++.+.. +-+...|+.--..+.+.| .++++.+.
T Consensus        89 ~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~  166 (567)
T 1dce_A           89 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAF  166 (567)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHH
Confidence            89999999999986654 7789998888888899  7799999999999875 457788888888888888 89999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhc--------------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 045379          212 FQRMKRDCCQPSTETYTLMINLYGKA--------------SKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEE  277 (352)
Q Consensus       212 ~~~m~~~~~~~~~~~~~~li~~~~~~--------------g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~  277 (352)
                      ++++.+.. +-+..+|+.....+.+.              +.++++++.+++..... +-|...|+-+-..+.+.++.++
T Consensus       167 ~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          167 TDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             HHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             HHHHHHHC-CCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCccc
Confidence            99998875 34788998877776663              55789999998887653 3466778887777777666433

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.96  E-value=0.0062  Score=42.61  Aligned_cols=64  Identities=14%  Similarity=0.059  Sum_probs=37.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKR  217 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  217 (352)
                      +...+..+..++...|++++|...|++..+.. +.+...|..+..+|...|++++|...|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44556666666666666666666666665543 22345566666666666666666666665543

>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=96.94  E-value=0.073  Score=46.71  Aligned_cols=172  Identities=12%  Similarity=0.045  Sum_probs=82.8

Q ss_pred             cCcCcCcchhHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCH
Q 045379           56 DGIFPVLSPTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLH  135 (352)
Q Consensus        56 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  135 (352)
                      +..+.+-..+...|+.+..-.-...+........|.+...|...+++.....+                     ....+.
T Consensus       157 ~dlfalQdei~~~I~~aL~~~l~~~e~~r~~~~~p~~~~Aydl~Lra~~~l~~---------------------~~~~~~  215 (372)
T 3ly7_A          157 GNQLAIQNDLLESLSKALNQPWPQRMQETLQKILPHRGALLTNFYQAHDYLLH---------------------GDDKSL  215 (372)
T ss_dssp             SCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHSCSSGGGHHHHHHHHHHHHH---------------------CSHHHH
T ss_pred             HhHHHHHHHHHHHHHHHhCchhhHHHHHHHhccCCCCHHHHHHHHHHHHHHHc---------------------CCHHHH
Confidence            33344334455666666654444444555666677888888877776432211                     122345


Q ss_pred             HHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHH---cC-C-HHHHHH---HHHHHHH-CCCCCCHHHHHHHHHHHHcCCCH
Q 045379          136 KKAEFTYLELLDSRCIPT-EDTYALLLKAYCM---SG-L-LEKAEA---VFREMRK-YGLPPSAVVYNSYIDGLLKGGNP  205 (352)
Q Consensus       136 ~~a~~l~~~m~~~~~~p~-~~~~~~li~~~~~---~g-~-~~~a~~---~~~~m~~-~g~~~~~~~~~~li~~~~~~g~~  205 (352)
                      .+|..+|++..+..  |+ ...|..+.-++.-   .+ . ......   .+..... ...+.+..+|..+...+...|++
T Consensus       216 ~~A~~l~e~Al~lD--P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~gd~  293 (372)
T 3ly7_A          216 NRASELLGEIVQSS--PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLPELNNLSIIYQIKAVSALVKGKT  293 (372)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCCCH
Confidence            78999999998754  54 3455544444431   00 0 001111   0110000 11133444444444444444555


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          206 QKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      ++|...+++....+  |+...|..+-..+.-.|++++|.+.+++...
T Consensus       294 d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr  338 (372)
T 3ly7_A          294 DESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN  338 (372)
T ss_dssp             HHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            55555555554443  4444444444444455555555555544443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.85  E-value=0.038  Score=54.14  Aligned_cols=98  Identities=8%  Similarity=-0.112  Sum_probs=44.2

Q ss_pred             HHHhcCCHHHHHH-HhcCCC-CchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 045379           72 FVQREVDSNTIWD-AFDSLP-PTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSR  149 (352)
Q Consensus        72 ~~~~~g~~~~A~~-~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~  149 (352)
                      .....|++++|.+ ++..++ ++..  ..++..+.+.+..+.+.++.+..   ..-.....+.|++++|.++.+.+    
T Consensus       608 ~~~~~~~~~~a~~~~l~~i~~~~~~--~~~~~~l~~~~~~~~a~~~~~~~---~~~f~~~l~~~~~~~A~~~~~~~----  678 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPNVEGKDSL--TKIARFLEGQEYYEEALNISPDQ---DQKFELALKVGQLTLARDLLTDE----  678 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGGCCCHHHH--HHHHHHHHHTTCHHHHHHHCCCH---HHHHHHHHHHTCHHHHHHHHTTC----
T ss_pred             HHHHhCCHHHHHHHHHhcCCchHHH--HHHHHHHHhCCChHHheecCCCc---chheehhhhcCCHHHHHHHHHhh----
Confidence            3345788999888 775554 3211  33333333333222211111110   11122233445555555443322    


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 045379          150 CIPTEDTYALLLKAYCMSGLLEKAEAVFREM  180 (352)
Q Consensus       150 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  180 (352)
                        .+...|..+...|.+.|+++.|++.|..+
T Consensus       679 --~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          679 --SAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             --CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             --CcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence              24445555555555555555555555544

>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=96.68  E-value=0.0049  Score=47.24  Aligned_cols=37  Identities=19%  Similarity=0.051  Sum_probs=17.3

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC
Q 045379          167 SGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGN  204 (352)
Q Consensus       167 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  204 (352)
                      .+++++|.+.++...+.. +.+...|..+-.++...++
T Consensus        15 ~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~   51 (158)
T 1zu2_A           15 ILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQ   51 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcc
Confidence            344555555555554432 2344444444444444443

>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=96.65  E-value=0.0052  Score=47.09  Aligned_cols=41  Identities=7%  Similarity=-0.108  Sum_probs=28.8

Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH
Q 045379          130 GQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLE  171 (352)
Q Consensus       130 ~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  171 (352)
                      .+.+.+++|.+.++...+... -+...|..+-.++...++++
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P-~~aea~~n~G~~l~~l~~~~   53 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFH   53 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHS
T ss_pred             HHHhHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhcccc
Confidence            456677888888887776553 26677777777777777655

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=96.59  E-value=0.19  Score=46.41  Aligned_cols=152  Identities=12%  Similarity=0.058  Sum_probs=83.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC---------CCC---C
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG---------LPP---S  188 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---------~~~---~  188 (352)
                      .|-..+..+.+.|+.++|..+|++....  +.+...+.    .|+...+.++.   ++.+.+.-         ..+   .
T Consensus       215 lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~  285 (493)
T 2uy1_A          215 VYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKEL  285 (493)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---HHHHHHHTC----------CHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---HHHHHHHHHhhccchhhhhccccc
Confidence            7888888888999999999999999876  33332222    22222111111   22222110         001   1


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 045379          189 AVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYT--LMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALV  266 (352)
Q Consensus       189 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~--~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li  266 (352)
                      ...|-..+....+.+.++.|..+|++. +.. ..+...|-  +.+.... .++.+.|..+|+...+.. +-+...+...+
T Consensus       286 ~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~-~~~~~~~~~yi  361 (493)
T 2uy1_A          286 DLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKH-PDSTLLKEEFF  361 (493)
T ss_dssp             HHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            234555556555666777777777777 221 12333443  2222222 235777777777766532 11233455556


Q ss_pred             HHHHhcCCHHHHHHHHHHH
Q 045379          267 NAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       267 ~~~~~~g~~~~a~~l~~~m  285 (352)
                      ....+.|+.+.|..+|+.+
T Consensus       362 d~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          362 LFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHcCCHHHHHHHHHHH
Confidence            6666677777777777776

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.50  E-value=0.032  Score=54.63  Aligned_cols=131  Identities=14%  Similarity=0.106  Sum_probs=87.0

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKG  202 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  202 (352)
                      ..++..+.+.|.+++|+++.+.         ..   .-...+...|++++|.++.+.+      .+...|..+...+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~---------~~---~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD---------QD---QKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC---------HH---HHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCC---------cc---hheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHc
Confidence            5566666777777777655421         11   1123445678888888875442      4668899999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 045379          203 GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIF  282 (352)
Q Consensus       203 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~  282 (352)
                      ++++.|++.|.++..         |..+...|...|+.+...++-+.....|.      ++....+|.+.|++++|.+++
T Consensus       695 ~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~  759 (814)
T 3mkq_A          695 FNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK------FNLAFNAYWIAGDIQGAKDLL  759 (814)
T ss_dssp             TCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHH
Confidence            999999999988763         33455555557777776666666655542      344555666777888888777


Q ss_pred             HHHH
Q 045379          283 EQLQ  286 (352)
Q Consensus       283 ~~m~  286 (352)
                      .++.
T Consensus       760 ~~~~  763 (814)
T 3mkq_A          760 IKSQ  763 (814)
T ss_dssp             HHTT
T ss_pred             HHcC
Confidence            7664

>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=96.30  E-value=0.24  Score=43.43  Aligned_cols=144  Identities=10%  Similarity=0.032  Sum_probs=97.8

Q ss_pred             CCCCHHHHHHHHHHHH--HcCC---HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CC-CHHHH---HHHHHHHH
Q 045379          150 CIPTEDTYALLLKAYC--MSGL---LEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK----GG-NPQKA---VEIFQRMK  216 (352)
Q Consensus       150 ~~p~~~~~~~li~~~~--~~g~---~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g-~~~~a---~~~~~~m~  216 (352)
                      .+.+...|...+.+..  ..++   ..+|..+|++..+.. |-....+..+..+|..    .+ .-...   ...++...
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD-P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS-PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            4456777887776654  3333   578999999998863 2234555544444431    11 11111   11222211


Q ss_pred             H-cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 045379          217 R-DCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVY  295 (352)
Q Consensus       217 ~-~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~  295 (352)
                      . ..-+.+..++..+...+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.|.+....  .|...
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~  344 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGAN  344 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHH
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcC
Confidence            1 1225688889888888888899999999999999875  88888888888899999999999999998765  66666


Q ss_pred             HHH
Q 045379          296 AYN  298 (352)
Q Consensus       296 ~~~  298 (352)
                      ||.
T Consensus       345 t~~  347 (372)
T 3ly7_A          345 TLY  347 (372)
T ss_dssp             HHH
T ss_pred             hHH
Confidence            654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.20  E-value=0.019  Score=39.61  Aligned_cols=57  Identities=21%  Similarity=0.171  Sum_probs=36.8

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 045379          126 IEAYGQKSLHKKAEFTYLELLDSRCIPTED-TYALLLKAYCMSGLLEKAEAVFREMRKY  183 (352)
Q Consensus       126 i~~~~~~g~~~~a~~l~~~m~~~~~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~  183 (352)
                      ...+.+.|++++|.+.|++..+... .+.. .+..+..++...|++++|.+.|++..+.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTEP-VGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCS-STHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3455666777777777777665432 2445 6666666777777777777777776654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.11  E-value=0.3  Score=37.90  Aligned_cols=102  Identities=13%  Similarity=0.014  Sum_probs=56.7

Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH
Q 045379          128 AYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQK  207 (352)
Q Consensus       128 ~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  207 (352)
                      ...+.|+++.|.++.+++      -+...|..|-..+...|+++.|++.|.....         +..+.-.|.-.|+.+.
T Consensus        14 LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~   78 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNK   78 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHH
T ss_pred             HHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHH
Confidence            344566666666665544      3566666666666666666666666666422         2333334444555555


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          208 AVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       208 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      ..++-+.-...|      -+|.....+...|+++++.++|.+.
T Consensus        79 L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           79 LSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            544444333332      2444445555666777776666443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.10  E-value=0.02  Score=39.50  Aligned_cols=53  Identities=21%  Similarity=0.293  Sum_probs=24.3

Q ss_pred             HHcCCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          199 LLKGGNPQKAVEIFQRMKRDCCQPSTE-TYTLMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       199 ~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      +.+.|++++|...|++..+.. +.+.. .+..+..+|...|++++|.+.|++..+
T Consensus        10 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A           10 LINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344445555555555444432 12333 444444445555555555555554443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.97  E-value=0.31  Score=35.92  Aligned_cols=139  Identities=15%  Similarity=0.036  Sum_probs=83.8

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHH
Q 045379          131 QKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVE  210 (352)
Q Consensus       131 ~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  210 (352)
                      -.|.+++..++..+....   .+..-||-+|--....-+=+-..++++..-+   ..|.          ..+|++.....
T Consensus        19 ldG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGk---iFDi----------s~C~NlKrVi~   82 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDL----------DKCQNLKSVVE   82 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCG----------GGCSCTHHHHH
T ss_pred             HhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhh---hcCc----------HhhhcHHHHHH
Confidence            346666667777666653   2444455555444444444444444444322   1221          12344444444


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 045379          211 IFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGI  290 (352)
Q Consensus       211 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~  290 (352)
                      .+-.+-.     +..-.+..++....+|+-++-.++..++.. +-+|++...-.+..+|.+.|+..+|.+++.+.-+.|+
T Consensus        83 C~~~~n~-----~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           83 CGVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhcc-----hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            4433321     444567777888888888888888888543 3467777888888888888888888888888888776


Q ss_pred             C
Q 045379          291 E  291 (352)
Q Consensus       291 ~  291 (352)
                      +
T Consensus       157 k  157 (172)
T 1wy6_A          157 K  157 (172)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.28  E-value=0.17  Score=35.46  Aligned_cols=66  Identities=12%  Similarity=0.013  Sum_probs=36.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC------CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYG------LPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      +..-+..+...+.+.|+++.|...|+...+.-      -.+....+..+..+|.+.|+++.|...+++..+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            44455555566666666666666665554320      1233455555666666666666666666655543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.01  E-value=0.23  Score=34.12  Aligned_cols=65  Identities=8%  Similarity=-0.062  Sum_probs=32.6

Q ss_pred             CHHHHHHHHHHHHcCCC---HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          188 SAVVYNSYIDGLLKGGN---PQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       188 ~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      +...+..+..++...++   .++|..++++..+.. +-+..+...+-..+.+.|++++|+..|+.+.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34444444444433322   455555555555442 224455555555555555555555555555543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.91  E-value=0.41  Score=36.17  Aligned_cols=64  Identities=14%  Similarity=-0.064  Sum_probs=26.9

Q ss_pred             CHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          223 STETYTLMINLYGKAS---KSFMALKLFNEMRSHKCKP--NICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       223 ~~~~~~~li~~~~~~g---~~~~a~~l~~~m~~~g~~p--~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      +..+.-.+--++++.+   +.++++.+|++..+.. .|  +...+-.+.-+|.+.|++++|.+.++.+.+
T Consensus        31 ~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~   99 (152)
T 1pc2_A           31 SKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ   99 (152)
T ss_dssp             CHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            4444444444444444   3334444444444332 12  122333333344455555555555554443

>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=94.84  E-value=0.33  Score=41.03  Aligned_cols=94  Identities=20%  Similarity=0.232  Sum_probs=66.7

Q ss_pred             HHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHHc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC-CCH
Q 045379          135 HKKAEFTYLELLDSRCIPT---EDTYALLLKAYCMS-----GLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKG-GNP  205 (352)
Q Consensus       135 ~~~a~~l~~~m~~~~~~p~---~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-g~~  205 (352)
                      ...|..++++..+..  |+   ...|..+...|...     |+.+.|.+.|++..+..-.-+..++......++.. |+.
T Consensus       179 l~~A~a~lerAleLD--P~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDLW--PSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHHC--TTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHhC--CCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            456677777776633  55   45778888888884     88888888888888753222467777888888774 888


Q ss_pred             HHHHHHHHHHHHcCCC--CCHHHHHHH
Q 045379          206 QKAVEIFQRMKRDCCQ--PSTETYTLM  230 (352)
Q Consensus       206 ~~a~~~~~~m~~~~~~--~~~~~~~~l  230 (352)
                      +++.+.+++.......  |+....|.+
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence            8888888888887555  555544444

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.69  E-value=1.1  Score=34.66  Aligned_cols=103  Identities=17%  Similarity=0.171  Sum_probs=71.2

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 045379          162 KAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSF  241 (352)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  241 (352)
                      ......|+++.|.++.+++      .+...|..|-......|+++-|++.|.+...         +..+.--|...|+.+
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            3455678888888887765      3567888888888888888888888888763         334555566667777


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          242 MALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       242 ~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      ...++-+.....|-      ++.....+.-.|+++++.++|.+.
T Consensus        78 ~L~kla~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           78 KLSKMQNIAQTRED------FGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHHC
Confidence            66666555554441      555555666677777777776543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=94.65  E-value=0.28  Score=34.30  Aligned_cols=65  Identities=9%  Similarity=0.034  Sum_probs=36.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          223 STETYTLMINLYGKASKSFMALKLFNEMRSH------KCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       223 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~------g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      +...+-.|-..+.+.|+++.|...|+...+.      .-.+....+..+..+|.+.|++++|...+++..+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            4444555555666666666666666554331      0123344566666666666666666666666654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.27  E-value=0.91  Score=34.26  Aligned_cols=79  Identities=13%  Similarity=0.070  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHhcCCHHHHHHHH
Q 045379          173 AEAVFREMRKYGLPPSAVVYNSYIDGLLKGG---NPQKAVEIFQRMKRDCCQP--STETYTLMINLYGKASKSFMALKLF  247 (352)
Q Consensus       173 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~l~  247 (352)
                      +.+-|.+..+.|. ++..+.-.+..++++.+   +.+++..+|++..+.. .|  ....+-.|--+|.+.|++++|.+.+
T Consensus        17 ~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~   94 (152)
T 1pc2_A           17 FEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYV   94 (152)
T ss_dssp             HHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHHH
Confidence            3334444334333 44455555555555555   3445666666555542 12  2333444445556666666666666


Q ss_pred             HHHHhC
Q 045379          248 NEMRSH  253 (352)
Q Consensus       248 ~~m~~~  253 (352)
                      +.+.+.
T Consensus        95 ~~lL~i  100 (152)
T 1pc2_A           95 RGLLQT  100 (152)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            665543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=94.20  E-value=0.85  Score=31.14  Aligned_cols=67  Identities=10%  Similarity=-0.040  Sum_probs=54.7

Q ss_pred             CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          221 QPSTETYTLMINLYGKASK---SFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       221 ~~~~~~~~~li~~~~~~g~---~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      +.+...+..+..++...++   .++|..++++..+.. +-+......+-..+.+.|++++|...|+++.+.
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            4577777787777765555   799999999998763 345677888889999999999999999999876

>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=93.87  E-value=0.65  Score=39.21  Aligned_cols=95  Identities=15%  Similarity=0.114  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CCH
Q 045379          205 PQKAVEIFQRMKRDCCQPS---TETYTLMINLYGKA-----SKSFMALKLFNEMRSHKCKPNICTYTALVNAFARE-GLC  275 (352)
Q Consensus       205 ~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~-----g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~-g~~  275 (352)
                      ...|...+++..+.  .|+   -..|..|...|.+.     |+.++|.+.|++..+.+-.-+..++......++.. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            45677777777765  455   45788888888884     88999999999888753211367777778888774 889


Q ss_pred             HHHHHHHHHHHHCCCC--CCHHHHHHHH
Q 045379          276 EEAEEIFEQLQGAGIE--PDVYAYNALM  301 (352)
Q Consensus       276 ~~a~~l~~~m~~~~~~--p~~~~~~~li  301 (352)
                      +++.+.+++.......  |+....+.+-
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~lan~~~  284 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLLVILS  284 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHHHHHH
Confidence            9999999988887655  6655555443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.29  E-value=1.1  Score=33.04  Aligned_cols=66  Identities=18%  Similarity=0.199  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC
Q 045379          154 EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC  220 (352)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  220 (352)
                      .......++....+|+-|+-.+++..+.. ..+|++...-.+..+|.+.|+..+|.+++.+.-+.|+
T Consensus        91 se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           91 NEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            33444455555555555555555555333 2234445555555555555555555555555555543

>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=92.95  E-value=0.55  Score=41.74  Aligned_cols=127  Identities=11%  Similarity=0.032  Sum_probs=78.7

Q ss_pred             CHHHHHHHHHHHH---HcCCHHHHHHHHHHHHHC--CCC-CCHHHHHHHHHHHHcCCCHHHH-HHHHHHHHHcCCCCCHH
Q 045379          153 TEDTYALLLKAYC---MSGLLEKAEAVFREMRKY--GLP-PSAVVYNSYIDGLLKGGNPQKA-VEIFQRMKRDCCQPSTE  225 (352)
Q Consensus       153 ~~~~~~~li~~~~---~~g~~~~a~~~~~~m~~~--g~~-~~~~~~~~li~~~~~~g~~~~a-~~~~~~m~~~~~~~~~~  225 (352)
                      |...|..++....   ..|+.+.+.+.+.+....  |-. ++..           ...|-.+ ..-++++.       ..
T Consensus       111 D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~-----------~~~w~~~~r~~l~~~~-------~~  172 (388)
T 2ff4_A          111 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLR-----------DFQFVEPFATALVEDK-------VL  172 (388)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGT-----------TSTTHHHHHHHHHHHH-------HH
T ss_pred             hHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCC-----------chhHHHHHHHHHHHHH-------HH
Confidence            4455555554432   357888888888877653  211 1110           0122111 12222222       22


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 045379          226 TYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG-----AGIEPDVYAYN  298 (352)
Q Consensus       226 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~-----~~~~p~~~~~~  298 (352)
                      +...++..+...|++++|...+..+... .+.+...|..+|.++.+.|+..+|++.|+.+.+     .|+.|+..+-.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            4556777788888888888888777654 256777888888888888888888888887653     38888776544

>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=92.20  E-value=2.8  Score=31.46  Aligned_cols=101  Identities=13%  Similarity=0.134  Sum_probs=49.6

Q ss_pred             CHHHHHHHHHHHHHcCCH------HHHHHHHHHHHHCCCCCCH----HHHHHHHHH---HHcCCCHHHHHHHHHHHHHcC
Q 045379          153 TEDTYALLLKAYCMSGLL------EKAEAVFREMRKYGLPPSA----VVYNSYIDG---LLKGGNPQKAVEIFQRMKRDC  219 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~------~~a~~~~~~m~~~g~~~~~----~~~~~li~~---~~~~g~~~~a~~~~~~m~~~~  219 (352)
                      |..+|-..+...-+.|++      +...++|++.... ++|+.    ..|.-+.--   +...+++++|.++|+.+++. 
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~-   89 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN-   89 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH-
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH-
Confidence            455666666666656666      6666666665543 34431    011111000   11225566666666655543 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 045379          220 CQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKC  255 (352)
Q Consensus       220 ~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~  255 (352)
                      ++-=...|-+...--.++|++..|.+++......+.
T Consensus        90 hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~  125 (161)
T 4h7y_A           90 CKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGA  125 (161)
T ss_dssp             CTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCC
Confidence            111244555555555555666666666655555443

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=91.89  E-value=1  Score=40.04  Aligned_cols=71  Identities=10%  Similarity=0.139  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHH
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRS-----HKCKPNICTY  262 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~-----~g~~p~~~t~  262 (352)
                      ....++..+...|++++|...+..+.... +.+...|..+|.++.+.|+..+|++.|+.+..     .|+.|+..+-
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            45567778888999999998888887652 56888999999999999999999999988643     5889987653

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=91.17  E-value=1.2  Score=43.14  Aligned_cols=52  Identities=10%  Similarity=-0.157  Sum_probs=30.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHHHH
Q 045379          268 AFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSLVE  344 (352)
Q Consensus       268 ~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~~~  344 (352)
                      .|...|+++.|+++-++....  .|                       -+-.+|..|..+|...|++|.|+=.++-+
T Consensus       346 FLl~K~~~elAL~~Ak~AV~~--aP-----------------------seF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTEL--AL-----------------------DSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CS-----------------------SCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHhccCcHHHHHHHHHHHHhc--Cc-----------------------hhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            344566666666666665543  12                       25666666666666666666666555533

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=91.11  E-value=1.5  Score=31.87  Aligned_cols=23  Identities=13%  Similarity=-0.061  Sum_probs=10.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 045379          230 MINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       230 li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      |.-++.+.|++++|.+.++.+.+
T Consensus        80 LAvg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           80 LAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHH
Confidence            33444444555555544444443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=90.67  E-value=1.9  Score=31.27  Aligned_cols=82  Identities=16%  Similarity=-0.061  Sum_probs=39.6

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHH
Q 045379          205 PQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFM---ALKLFNEMRSHKCKP--NICTYTALVNAFAREGLCEEAE  279 (352)
Q Consensus       205 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~---a~~l~~~m~~~g~~p--~~~t~~~li~~~~~~g~~~~a~  279 (352)
                      +..+.+-|.+-...|. ++..+--.+.-++++..+...   ++.+++++...+ .|  .....-.|.-++.+.|++++|.
T Consensus        17 l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~   94 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            3344444444443332 444444444445555554443   555555555432 12  2223334444556666666666


Q ss_pred             HHHHHHHHC
Q 045379          280 EIFEQLQGA  288 (352)
Q Consensus       280 ~l~~~m~~~  288 (352)
                      +.++.+.+.
T Consensus        95 ~~~~~lL~~  103 (126)
T 1nzn_A           95 KYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666666543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=90.21  E-value=4.2  Score=39.37  Aligned_cols=126  Identities=17%  Similarity=0.060  Sum_probs=81.5

Q ss_pred             HHHHHHHHccCC-HHHHHHHHHHHHhCCCCCCHHH-H-HHHHHHHHHcCC-HHHHHHHHHHHHHC------CCCCCH---
Q 045379          123 ILLIEAYGQKSL-HKKAEFTYLELLDSRCIPTEDT-Y-ALLLKAYCMSGL-LEKAEAVFREMRKY------GLPPSA---  189 (352)
Q Consensus       123 ~~li~~~~~~g~-~~~a~~l~~~m~~~~~~p~~~~-~-~~li~~~~~~g~-~~~a~~~~~~m~~~------g~~~~~---  189 (352)
                      ..++..+...|+ ++.|..+|+++.+..  |...+ + ..++......++ --+|.++..+..+.      ..++..   
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            556666666777 588999999998754  43332 2 233333333332 22444555444321      222211   


Q ss_pred             --------HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 045379          190 --------VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMR  251 (352)
Q Consensus       190 --------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~  251 (352)
                              ...+.-.+.+...|+++.|..+-++....- +.+-.+|-.|..+|...|+++.|+-.+..+.
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                    122333455677899999999999987762 3457899999999999999999999998873

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.18  E-value=12  Score=33.66  Aligned_cols=228  Identities=11%  Similarity=0.043  Sum_probs=135.3

Q ss_pred             cchhhHHhHHHHHHHHHHHccCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHH----HHcCCHHHHHH--HHHHHHH--
Q 045379          112 WDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELLDS-RCIPTEDTYALLLKAY----CMSGLLEKAEA--VFREMRK--  182 (352)
Q Consensus       112 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~-~~~p~~~~~~~li~~~----~~~g~~~~a~~--~~~~m~~--  182 (352)
                      .............++..|.+.|+++...+.+..+... |..+.  ....++..+    ......+....  +.+....  
T Consensus        49 ~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~--ai~~~V~~~~~~l~~~~~~d~~~~~~~i~~l~~vt  126 (445)
T 4b4t_P           49 ASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKL--SIQYMIQKVMEYLKSSKSLDLNTRISVIETIRVVT  126 (445)
T ss_dssp             SCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHH--HHHHHHHHHHHHHHHHCTTHHHHHHHHHHCCSSSS
T ss_pred             ccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHH--HHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHh
Confidence            3333333447788899999999999998888776643 33222  223333333    33333332222  1111110  


Q ss_pred             CC-CCC---CHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHh-
Q 045379          183 YG-LPP---SAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD--CCQPS---TETYTLMINLYGKASKSFMALKLFNEMRS-  252 (352)
Q Consensus       183 ~g-~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~~~---~~~~~~li~~~~~~g~~~~a~~l~~~m~~-  252 (352)
                      .| +-.   .......|...|...|++.+|..++.++...  |..+.   +..+...+..|...+++.+|..++..... 
T Consensus       127 e~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~  206 (445)
T 4b4t_P          127 ENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKK  206 (445)
T ss_dssp             SCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            11 111   1233456888899999999999999998642  22111   34677788999999999999999988642 


Q ss_pred             ---CCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHH--------------HHHHH-h
Q 045379          253 ---HKCKPNI--CTYTALVNAFAREGLCEEAEEIFEQLQGA-GIEPDVYAYNALMEAYR--------------LISRM-H  311 (352)
Q Consensus       253 ---~g~~p~~--~t~~~li~~~~~~g~~~~a~~l~~~m~~~-~~~p~~~~~~~li~a~~--------------~~~~m-~  311 (352)
                         ....|+.  .-+...+..+...+++.+|.+.|.++.+. ...-|...+..++....              +.... .
T Consensus       207 ~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~iLa~~~~~~~~ll~~~~~  286 (445)
T 4b4t_P          207 TFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFLVLSPYGNLQNDLIHKIQN  286 (445)
T ss_dssp             HHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSSCSSTTHHHHHSHHH
T ss_pred             hcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHhh
Confidence               2222322  34677778888899999999999888643 22334444443333222              22222 2


Q ss_pred             cCCCCCHHHHHHHHHHHHHcC--CcchhHHHH
Q 045379          312 MGCEPDRASYNIMVDAYGRAG--LHEGKCSYS  341 (352)
Q Consensus       312 ~~~~p~~~~~~~li~a~~~~g--~~~~A~~~~  341 (352)
                      ..-.++...|..++.+|....  +++.+.+.|
T Consensus       287 ~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~  318 (445)
T 4b4t_P          287 DNNLKKLESQESLVKLFTTNELMRWPIVQKTY  318 (445)
T ss_dssp             HSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHT
T ss_pred             cccccccHHHHHHHHHHHhchHhhhHHHHHHH
Confidence            222356677888888887653  344544444

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=88.69  E-value=2.1  Score=29.60  Aligned_cols=33  Identities=21%  Similarity=0.100  Sum_probs=13.0

Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          253 HKCKPNICTYTALVNAFAREGLCEEAEEIFEQL  285 (352)
Q Consensus       253 ~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m  285 (352)
                      ..+.|++....+.+.+|-+-+++..|.++++-+
T Consensus        39 ~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~i   71 (109)
T 1v54_E           39 YDLVPEPKIIDAALRACRRLNDFASAVRILEVV   71 (109)
T ss_dssp             SSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            333333333333344444444444444433333

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=87.88  E-value=5.1  Score=27.71  Aligned_cols=62  Identities=13%  Similarity=0.086  Sum_probs=39.7

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 045379          134 LHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYI  196 (352)
Q Consensus       134 ~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li  196 (352)
                      +.=++.+-++.+....+.|++......+.+|-+.+++..|..+++-.+.+- .+...+|..++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~l   86 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   86 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHH
Confidence            445666666677777777777777777777777777777777777665442 12233455444

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=87.13  E-value=15  Score=37.64  Aligned_cols=144  Identities=13%  Similarity=-0.050  Sum_probs=84.1

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CC---------------
Q 045379          125 LIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY----GL---------------  185 (352)
Q Consensus       125 li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~---------------  185 (352)
                      ++..+.+.+.++-+.++.....     -++..--.+..++...|++++|.+.|.+.-..    ..               
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~~-----~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~  892 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWLN-----SDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKY  892 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHSC-----CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTT
T ss_pred             HHHHHHHhhhHHHHHHHhhhcc-----CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccc
Confidence            4444555555555554443322     24444445566777788888888888664210    00               


Q ss_pred             ---CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 045379          186 ---PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPST----ETYTLMINLYGKASKSFMALKLFNEMRSHKCKPN  258 (352)
Q Consensus       186 ---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~  258 (352)
                         ..-..-|..++..+-+.+.++.+.++-....+..-+-+.    ..|..+..++...|++++|...+-.+.....  -
T Consensus       893 ~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r  970 (1139)
T 4fhn_B          893 HHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--K  970 (1139)
T ss_dssp             TSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--C
T ss_pred             cccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--H
Confidence               001133566777777777777777766655443211121    2467778888888888888888877766533  3


Q ss_pred             HHHHHHHHHHHHhcCCH
Q 045379          259 ICTYTALVNAFAREGLC  275 (352)
Q Consensus       259 ~~t~~~li~~~~~~g~~  275 (352)
                      ......|+...|..|+.
T Consensus       971 ~~cLr~LV~~lce~~~~  987 (1139)
T 4fhn_B          971 KSCLLDFVNQLTKQGKI  987 (1139)
T ss_dssp             HHHHHHHHHHHHHHCCH
T ss_pred             HHHHHHHHHHHHhCCCh
Confidence            44566666666665554

>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=87.01  E-value=4.6  Score=30.36  Aligned_cols=104  Identities=13%  Similarity=0.113  Sum_probs=68.6

Q ss_pred             CHHHHHHHHHHHHcCCCH------HHHHHHHHHHHHcCCCCCHH----HHHHHH---HHHHhcCCHHHHHHHHHHHHhCC
Q 045379          188 SAVVYNSYIDGLLKGGNP------QKAVEIFQRMKRDCCQPSTE----TYTLMI---NLYGKASKSFMALKLFNEMRSHK  254 (352)
Q Consensus       188 ~~~~~~~li~~~~~~g~~------~~a~~~~~~m~~~~~~~~~~----~~~~li---~~~~~~g~~~~a~~l~~~m~~~g  254 (352)
                      |..+|-..+...-+.|++      ++..++|++.... ++|+..    .|--|-   ..+...+++++|.++|+.+.+.+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            445555555555555666      6777777776653 455421    111111   01123489999999999997653


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 045379          255 CKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPD  293 (352)
Q Consensus       255 ~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~  293 (352)
                      -+- ...|-....-=.++|++..|.+++......+.+|.
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~  128 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPL  128 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCH
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcH
Confidence            333 77777777777889999999999999998776653

>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=86.88  E-value=15  Score=31.99  Aligned_cols=112  Identities=12%  Similarity=0.126  Sum_probs=78.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC--HHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045379          225 ETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGL--CEEAEEIFEQLQGAGIEPDVYAYNALME  302 (352)
Q Consensus       225 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~--~~~a~~l~~~m~~~~~~p~~~~~~~li~  302 (352)
                      ...+.++.-|...|+.++|.+.++++..-... ...+...+..+.-+.++  .+...+++..+.+.|+-+.......+.+
T Consensus       218 kki~~lL~EY~~s~D~~EA~~ci~EL~~p~fh-he~V~~av~~aLE~~~~~~re~~~~LL~~L~~~glls~~q~~~Gf~~  296 (358)
T 3eiq_C          218 KEIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYER  296 (358)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHCCTTCH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCHHHHHHHHHHccCCcch-HHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence            34688999999999999999999999632211 23445666666666543  4678899999999988887777777777


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchh
Q 045379          303 AYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGK  337 (352)
Q Consensus       303 a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A  337 (352)
                      .+..+..+.-.++--...+..++.-+...|-+...
T Consensus       297 vl~~ldDl~lDiP~A~~~la~~varai~~g~l~~~  331 (358)
T 3eiq_C          297 IYNEIPDINLDVPHSYSVLERFVEECFQAGIISKQ  331 (358)
T ss_dssp             HHHHHHHHHHHCTTHHHHHHHHHHHHHHHTSSCHH
T ss_pred             HHHhccHhhcccccHHHHHHHHHHHHHHCCCCCHH
Confidence            77777777444444444556666677777766554

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=85.16  E-value=14  Score=30.70  Aligned_cols=110  Identities=14%  Similarity=0.043  Sum_probs=69.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHHHHH
Q 045379          232 NLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA--GIEPDVYAYNALMEAYRLISR  309 (352)
Q Consensus       232 ~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~--~~~p~~~~~~~li~a~~~~~~  309 (352)
                      ....+.|++++|++....-.+.. +-|...=..++..+|-.|+|++|.+-++...+.  ...|...+|..+|++-..=..
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~aE~~R~~   83 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKD   83 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHHHHHHHH
Confidence            34566777888777777666553 446666677778888888888888777777654  234445566666666553333


Q ss_pred             H-hcC-----CCCCHHHHHHHHHHHHH--cCCcchhHHHHH
Q 045379          310 M-HMG-----CEPDRASYNIMVDAYGR--AGLHEGKCSYSL  342 (352)
Q Consensus       310 m-~~~-----~~p~~~~~~~li~a~~~--~g~~~~A~~~~~  342 (352)
                      + .-+     +.....-...|+.++..  .|+.++|.++-.
T Consensus        84 vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~  124 (273)
T 1zbp_A           84 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELAL  124 (273)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHH
Confidence            3 221     12244566677776554  589888887743

>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=85.14  E-value=7.4  Score=26.85  Aligned_cols=78  Identities=17%  Similarity=0.130  Sum_probs=38.9

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 045379          204 NPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFE  283 (352)
Q Consensus       204 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~  283 (352)
                      ..++|..+-+.+...+.  ...+--+=++.+.+.|++++|..+.+.+.    .||...|..|-..  +.|..+++..-+.
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce~--rlGl~s~le~rL~   93 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLALCEY--RLGLGSALESRLN   93 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHHHHH--HHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHHH--hcccHHHHHHHHH
Confidence            45555555555555432  11122222344555666666665554433    4566555554443  5555555555555


Q ss_pred             HHHHCC
Q 045379          284 QLQGAG  289 (352)
Q Consensus       284 ~m~~~~  289 (352)
                      ++...|
T Consensus        94 ~la~sg   99 (116)
T 2p58_C           94 RLARSQ   99 (116)
T ss_dssp             HHTTCC
T ss_pred             HHHhCC
Confidence            554443

>2zu6_B Programmed cell death protein 4; protein-protein complex, ATP-binding, helicase, hydrolase, initiation factor, nucleotide-binding; 2.80A {Homo sapiens} PDB: 3eij_A

Probab=84.91  E-value=14  Score=31.39  Aligned_cols=111  Identities=11%  Similarity=0.125  Sum_probs=72.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC--HHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045379          226 TYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGL--CEEAEEIFEQLQGAGIEPDVYAYNALMEA  303 (352)
Q Consensus       226 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~--~~~a~~l~~~m~~~~~~p~~~~~~~li~a  303 (352)
                      ..+.++.-|...|+.++|.+.++++..-... ...+...+..+.-+.++  .+....++..+.+.|+-+.......+-+.
T Consensus       168 ki~~lL~EY~~~~D~~EA~~ci~EL~~p~f~-~e~V~~ai~~alE~~~~~~re~~~~LL~~L~~~~~ls~~q~~~Gf~~v  246 (307)
T 2zu6_B          168 EIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIIMVLESTGESTFKMILDLLKSLWKSSTITVDQMKRGYERI  246 (307)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHCCGGGH-HHHHHHHHHHHHTCCSSHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHcCCCcch-HHHHHHHHHHHHccCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Confidence            3577899999999999999999998631111 12345555666665433  56688899999888877766665555555


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchh
Q 045379          304 YRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGK  337 (352)
Q Consensus       304 ~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A  337 (352)
                      +..++.+.-.++--...+..++.-+...|-+...
T Consensus       247 l~~l~Dl~lDiP~A~~~la~~v~~ai~~g~l~~~  280 (307)
T 2zu6_B          247 YNEIPDINLDVPHSYSVLERFVEECFQAGIISKQ  280 (307)
T ss_dssp             HHHHHHHHHHCTTHHHHHHHHHHHHHHHTSSCHH
T ss_pred             HHhccHhhcccccHHHHHHHHHHHHHHCCCCCHH
Confidence            5555555444433444455666667777766543

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=84.49  E-value=11  Score=33.69  Aligned_cols=96  Identities=16%  Similarity=-0.009  Sum_probs=70.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---CCCCCCHH----H
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDS--RCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRK---YGLPPSAV----V  191 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~g~~~~~~----~  191 (352)
                      +...+...|.+.|++++|.+.|.++.+.  +..--...+..+|..+...+++..+...+++...   .+-.|+..    .
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            5667889999999999999999999864  3333456888999999999999999999988754   23223221    1


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 045379          192 YNSYIDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       192 ~~~li~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      |..+  .+...+++..|-+.|-+....
T Consensus       213 ~~gl--~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          213 YYGI--HCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHH--GGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHH--HHHHhChHHHHHHHHHHHhcc
Confidence            2222  234578899999988876654

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=84.12  E-value=6.9  Score=26.94  Aligned_cols=78  Identities=17%  Similarity=0.144  Sum_probs=39.8

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 045379          204 NPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFE  283 (352)
Q Consensus       204 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~  283 (352)
                      ..++|..+-+.+...+.  ...+--+=++.+.+.|++++|..+.+.+.    .||...|..|-..  +.|..+++..-+.
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce~--rlGl~s~le~rL~   92 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNP----WPALEPWFALCEW--HLGLGAALDRRLA   92 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCC----CGGGHHHHHHHHH--HTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHHH--hcccHHHHHHHHH
Confidence            45555555555555432  11122222444556666666665544332    5666665555443  5666666666665


Q ss_pred             HHHHCC
Q 045379          284 QLQGAG  289 (352)
Q Consensus       284 ~m~~~~  289 (352)
                      ++...|
T Consensus        93 ~la~sg   98 (115)
T 2uwj_G           93 GLGGSS   98 (115)
T ss_dssp             HHHTCS
T ss_pred             HHHhCC
Confidence            555444

>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=83.38  E-value=11  Score=27.71  Aligned_cols=68  Identities=12%  Similarity=0.116  Sum_probs=47.7

Q ss_pred             HHccC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045379          129 YGQKS-LHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYID  197 (352)
Q Consensus       129 ~~~~g-~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  197 (352)
                      |.+.. |.=+..+-++.+....+.|++......+.+|-+.+++..|..+++-.+.+- .+...+|..++.
T Consensus        62 F~~~~iD~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lq  130 (152)
T 2y69_E           62 FNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ  130 (152)
T ss_dssp             HTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHH
Confidence            44444 555677777777777888888888888888888888888888888776542 223445655553

>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=83.33  E-value=5  Score=29.42  Aligned_cols=33  Identities=6%  Similarity=0.063  Sum_probs=13.3

Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          218 DCCQPSTETYTLMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       218 ~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      ..+.|++....+.+.+|.+.+++..|.++|+-+
T Consensus        82 ~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~v  114 (152)
T 2y69_E           82 YDLVPEPKIIDAALRACRRLNDFASAVRILEVV  114 (152)
T ss_dssp             SSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            333344444444444444444444444444333

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=82.78  E-value=0.023  Score=51.50  Aligned_cols=206  Identities=10%  Similarity=0.027  Sum_probs=130.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC---CchhhHHHHHHHHHHHhhccCcchhhHHhH--HHHHHHHHHHccCCHHHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP---PTHATWDDLINVSVQLRLNKKWDPIVLMSC--VSILLIEAYGQKSLHKKAE  139 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~a~  139 (352)
                      .|..++....+.|.+++-.+.+.-.+   +++..=+.++-+|++.++..+.++.+..-.  -...+.+-|...|.++.|.
T Consensus        85 ~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~~rL~elEefl~~~N~A~iq~VGDrcf~e~lYeAAK  164 (624)
T 3lvg_A           85 SYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFINGPNNAHIQQVGDRCYDEKMYDAAK  164 (624)
T ss_dssp             SSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTSCSSSTTTSTTSCCSSSCTHHHHHHHHHSCCSTTSS
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHHHhhCcHHHHHHHHcCCCcccHHHHHHHHHHccCHHHHH
Confidence            66789999999999999988886554   567777889999999988887777664322  2234455566666666665


Q ss_pred             HHHHHHHhC--------------------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          140 FTYLELLDS--------------------RCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       140 ~l~~~m~~~--------------------~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      -+|..+..-                    .-.-++.||-.+-.+|...+.+..|.-.--.+.-..     .-...++..|
T Consensus       165 ilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvha-----deL~elv~~Y  239 (624)
T 3lvg_A          165 LLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHA-----DELEELINYY  239 (624)
T ss_dssp             TTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCCS-----SCCSGGGSSS
T ss_pred             HHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhcccH-----HHHHHHHHHH
Confidence            555544221                    112467799999999999999888866544433221     1223456667


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-CCCCCCH-------HHHHHHHHHHHh
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRS-HKCKPNI-------CTYTALVNAFAR  271 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~-~g~~p~~-------~t~~~li~~~~~  271 (352)
                      -..|.+++.+.+++.-.... ......|+-|.-.|++- ++++..+.++..-. -++ |-.       ..|.-++-.|.+
T Consensus       240 E~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNi-pKviracE~ahLW~ElvfLY~~  316 (624)
T 3lvg_A          240 QDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNI-PKVLRAAEQAHLWAELVFLYDK  316 (624)
T ss_dssp             STTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCC-TTTHHHHTTTTCHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccH-HHHHHHHHHHhhHHHHHHHHhc
Confidence            88888888888888766321 35778888888888876 34444443333211 111 111       125555555555


Q ss_pred             cCCHHHH
Q 045379          272 EGLCEEA  278 (352)
Q Consensus       272 ~g~~~~a  278 (352)
                      -.+++.|
T Consensus       317 ydE~DnA  323 (624)
T 3lvg_A          317 YEEYDNA  323 (624)
T ss_dssp             HTCHHHH
T ss_pred             chhHHHH
Confidence            5555544

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=82.51  E-value=23  Score=30.48  Aligned_cols=117  Identities=13%  Similarity=0.008  Sum_probs=55.3

Q ss_pred             hHHhHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHHHHHHCCCCCCHHH
Q 045379          116 VLMSCVSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKA----EAVFREMRKYGLPPSAVV  191 (352)
Q Consensus       116 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a----~~~~~~m~~~g~~~~~~~  191 (352)
                      ++....|-++..-|.+++++++|.+++-.--               ..+.+.|+...|    .-+.+-+.+.++++|...
T Consensus        32 YEAHQ~~RTi~~Ry~~~k~y~eAidLL~~GA---------------~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~   96 (336)
T 3lpz_A           32 YEAAQETRLVAARYSKQGNWAAAVDILASVS---------------QTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGAS   96 (336)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHH
T ss_pred             cHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH---------------HHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHH
Confidence            3333355666666666666666666543321               123334443332    223344445556666665


Q ss_pred             HHHHHHHHHcCCCHH-HHHHHHHHH----HHcC--CCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 045379          192 YNSYIDGLLKGGNPQ-KAVEIFQRM----KRDC--CQPSTETYTLMINLYGKASKSFMALKLF  247 (352)
Q Consensus       192 ~~~li~~~~~~g~~~-~a~~~~~~m----~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~l~  247 (352)
                      ...++..+.....-+ .-..+.+++    .+.|  -.-|......+-..|.+.+++.+|+..|
T Consensus        97 ~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~  159 (336)
T 3lpz_A           97 RGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHL  159 (336)
T ss_dssp             HHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            555555555544311 111222222    2212  1224455555666666666666655544

>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=81.78  E-value=9.1  Score=26.41  Aligned_cols=78  Identities=14%  Similarity=0.036  Sum_probs=37.2

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHH
Q 045379          134 LHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQ  213 (352)
Q Consensus       134 ~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~  213 (352)
                      +.++|..+-+.+...+.  ....--+-+....++|++++|..+.+.+    ..||...|-+|..  .+.|..++++.-+.
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~rL~   93 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKL----AYPDLEPWLALCE--YRLGLGSALESRLN   93 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTS----CCGGGHHHHHHHH--HHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHHHH
Confidence            44555555555544322  1112222233445566666666554443    2455555555543  34455555555555


Q ss_pred             HHHHcC
Q 045379          214 RMKRDC  219 (352)
Q Consensus       214 ~m~~~~  219 (352)
                      ++-..|
T Consensus        94 ~la~sg   99 (116)
T 2p58_C           94 RLARSQ   99 (116)
T ss_dssp             HHTTCC
T ss_pred             HHHhCC
Confidence            554443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=80.90  E-value=8.4  Score=26.52  Aligned_cols=79  Identities=11%  Similarity=-0.028  Sum_probs=41.2

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHH
Q 045379          133 SLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIF  212 (352)
Q Consensus       133 g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~  212 (352)
                      .+.++|..+-+.+...+.  ....--+-+....++|++++|..+.+.+    ..||...|-+|..  .+.|..++++.-+
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~rL   91 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGN----PWPALEPWFALCE--WHLGLGAALDRRL   91 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTC----CCGGGHHHHHHHH--HHTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHHH
Confidence            345555555555554432  1222222234455666666666654443    3566666655543  3566666666666


Q ss_pred             HHHHHcC
Q 045379          213 QRMKRDC  219 (352)
Q Consensus       213 ~~m~~~~  219 (352)
                      .++-.+|
T Consensus        92 ~~la~sg   98 (115)
T 2uwj_G           92 AGLGGSS   98 (115)
T ss_dssp             HHHHTCS
T ss_pred             HHHHhCC
Confidence            5655554

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	352
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	7e-06
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-05

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

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]

 Score = 45.0 bits (105), Expect = 7e-06
 Identities = 26/152 (17%), Positives = 53/152 (34%), Gaps = 6/152 (3%)

Query: 155 DTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQR 214
           D Y  L      + + ++A A +        P  AVV+ +      + G    A++ ++R
Sbjct: 204 DAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRR 262

Query: 215 MKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGL 274
                     + Y  + N   +      A   +N      C  +  +   L N    +G 
Sbjct: 263 AIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTA-LRLCPTHADSLNNLANIKREQGN 320

Query: 275 CEEAEEIFEQLQGAGIEPD-VYAYNALMEAYR 305
            EEA  ++ +     + P+   A++ L    +
Sbjct: 321 IEEAVRLYRKA--LEVFPEFAAAHSNLASVLQ 350

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

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]

 Score = 43.9 bits (102), Expect = 2e-05
 Identities = 30/185 (16%), Positives = 66/185 (35%), Gaps = 9/185 (4%)

Query: 123 ILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRK 182
           I L     +  +  +A         S        +  L   Y   GL++ A   +R   +
Sbjct: 207 INLGNVLKEARIFDRAV-AAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE 265

Query: 183 YGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFM 242
              P     Y +  + L + G+  +A + +    R C   +     L  N+  +      
Sbjct: 266 LQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLA-NIKREQGNIEE 323

Query: 243 ALKLFNEMRSHKCKPNIC-TYTALVNAFAREGLCEEAEEIFEQLQGAGIEPD-VYAYNAL 300
           A++L+   ++ +  P     ++ L +   ++G  +EA   +++     I P    AY+ +
Sbjct: 324 AVRLYR--KALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEA--IRISPTFADAYSNM 379

Query: 301 MEAYR 305
               +
Sbjct: 380 GNTLK 384

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	352
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.67
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.56
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.38
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.33
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.96
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.9
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.9
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.89
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.89
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.78
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.77
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.65
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.63
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.56
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.5
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.41
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.38
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.31
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.29
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.29
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.28
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.26
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.26
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.06
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.05
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.03
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.99
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.89
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.89
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	97.85
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.8
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.74
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.73
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.72
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.7
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.68
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.66
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.61
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.6
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.5
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.37
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.29
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.29
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.28
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.13
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.07
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.01
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.0
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.97
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.55
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.24
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	96.15
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.13
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	95.82
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.72
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.52
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.25
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	90.88
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	88.4
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.28
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	85.37
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	84.82
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	82.56

>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=99.67  E-value=5.4e-14  Score=123.68  Aligned_cols=278  Identities=13%  Similarity=0.013  Sum_probs=160.8

Q ss_pred             cCcchhHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH---------------
Q 045379           60 PVLSPTAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC---------------  120 (352)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---------------  120 (352)
                      |....++..+...|.+.|++++|...|++.    |.+...|..+..++...|+.+.+...+....               
T Consensus        30 p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  109 (388)
T d1w3ba_          30 PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAA  109 (388)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccccccccccccccccccccccccccccc
Confidence            444557778888888888888888888764    3466778888888777776655444332222               


Q ss_pred             ---------------------------HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 045379          121 ---------------------------VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKA  173 (352)
Q Consensus       121 ---------------------------~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  173 (352)
                                                 ............+....+...+........ -+...+..+...+...|++++|
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A  188 (388)
T d1w3ba_         110 ALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQP-NFAVAWSNLGCVFNAQGEIWLA  188 (388)
T ss_dssp             HHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCc-chhHHHHhhcccccccCcHHHH
Confidence                                       222233333333444444444444433221 2344555555666666666666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          174 EAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       174 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      ...+++..+.. +.+...+..+...+...|++++|...+++..+.+ +.+...+..+...+.+.|++++|+..|++..+.
T Consensus       189 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  266 (388)
T d1w3ba_         189 IHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL  266 (388)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            66666655532 2344556666666666666666666666655543 234555555666666666666666666665544


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHH
Q 045379          254 KCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR----------LISRMHMGCEPDRASYNI  323 (352)
Q Consensus       254 g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~  323 (352)
                      . +-+..++..+...+...|++++|.+.++...... ..+...+..+...+.          .+++.-.-.+-+...+..
T Consensus       267 ~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~  344 (388)
T d1w3ba_         267 Q-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSN  344 (388)
T ss_dssp             C-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHH
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            2 2234556666666666666666666666554432 233344444443333          333331222336777888


Q ss_pred             HHHHHHHcCCcchhHHHHH
Q 045379          324 MVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       324 li~a~~~~g~~~~A~~~~~  342 (352)
                      +..+|.+.|++++|.+.|.
T Consensus       345 la~~~~~~g~~~~A~~~~~  363 (388)
T d1w3ba_         345 LASVLQQQGKLQEALMHYK  363 (388)
T ss_dssp             HHHHHHTTTCCHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHH
Confidence            8889999999999998886

>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=99.56  E-value=6e-12  Score=110.28  Aligned_cols=269  Identities=16%  Similarity=0.071  Sum_probs=196.8

Q ss_pred             HHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCCHH
Q 045379           69 ILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSLHK  136 (352)
Q Consensus        69 l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~~  136 (352)
                      +...+.+.|++++|.+.|+++    |.++..|..+..++...|+.+.+...+....        +|..+...|.+.|+++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhcccc
Confidence            456678899999999888765    3567778888888877777766666555433        7777888888888888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----------------------------------cCCHHHHHHHHHHHHH
Q 045379          137 KAEFTYLELLDSRCIPTEDTYALLLKAYCM----------------------------------SGLLEKAEAVFREMRK  182 (352)
Q Consensus       137 ~a~~l~~~m~~~~~~p~~~~~~~li~~~~~----------------------------------~g~~~~a~~~~~~m~~  182 (352)
                      +|.+.+....+.... +.............                                  .+....+...+.....
T Consensus        85 ~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          85 EAIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             ccccccccccccccc-cccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhc
Confidence            888888877764432 22222222222222                                  2223333333333332


Q ss_pred             CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 045379          183 YGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTY  262 (352)
Q Consensus       183 ~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~  262 (352)
                      . .+.+...+..+...+...|++++|...+++..+.. +-+..++..+...+...|++++|+..+++....+ +.+...+
T Consensus       164 ~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  240 (388)
T d1w3ba_         164 T-QPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVH  240 (388)
T ss_dssp             H-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHH
T ss_pred             c-CcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHH
Confidence            2 13346777888889999999999999999988763 3467889999999999999999999999988754 4567788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcC
Q 045379          263 TALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAG  332 (352)
Q Consensus       263 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g  332 (352)
                      ..+...+.+.|++++|...|++..+.. .-+...+..+...+.          .++......+.+...+..+...+.+.|
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  319 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCC
Confidence            889999999999999999999988753 223556666655554          555554455778899999999999999


Q ss_pred             CcchhHHHHH
Q 045379          333 LHEGKCSYSL  342 (352)
Q Consensus       333 ~~~~A~~~~~  342 (352)
                      ++++|.+.|.
T Consensus       320 ~~~~A~~~~~  329 (388)
T d1w3ba_         320 NIEEAVRLYR  329 (388)
T ss_dssp             CHHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            9999999986

>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=99.38  E-value=6.7e-11  Score=101.70  Aligned_cols=257  Identities=12%  Similarity=0.011  Sum_probs=183.8

Q ss_pred             HHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH--------HHHHHHHHHHccCCH
Q 045379           68 QILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC--------VSILLIEAYGQKSLH  135 (352)
Q Consensus        68 ~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------~~~~li~~~~~~g~~  135 (352)
                      .....+.+.|++++|...|++.    |.++..|..+..++...++.+.+...+....        .|..+...|...|++
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~  103 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQ  103 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccccccc
Confidence            4566678999999999999865    3567789888888888887766655554433        888888899999999


Q ss_pred             HHHHHHHHHHHhCCCC--------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHH
Q 045379          136 KKAEFTYLELLDSRCI--------------PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG-LPPSAVVYNSYIDGLL  200 (352)
Q Consensus       136 ~~a~~l~~~m~~~~~~--------------p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~  200 (352)
                      ++|.+.+.........              .+.......+..+...+.+++|.+.+.+..+.. -.++..++..+...+.
T Consensus       104 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~  183 (323)
T d1fcha_         104 RQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFN  183 (323)
T ss_dssp             HHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHH
T ss_pred             cccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHH
Confidence            9999999988764321              011112223334455567788888888776542 2346678888889999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEE  280 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~  280 (352)
                      ..|++++|...|++..+.. +-+..+|..+..+|...|++++|++.|++..+.. +-+..+|..+..+|.+.|++++|.+
T Consensus       184 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~  261 (323)
T d1fcha_         184 LSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVE  261 (323)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHH
Confidence            9999999999999988763 3467889999999999999999999999987652 3356789999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHH
Q 045379          281 IFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSY  340 (352)
Q Consensus       281 l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~  340 (352)
                      .|.+..+.  .|+.....            ..........|..+-.++...|+.+.+...
T Consensus       262 ~~~~al~l--~p~~~~~~------------~~~~~~~~~~~~~l~~al~~~~~~d~~~~~  307 (323)
T d1fcha_         262 HFLEALNM--QRKSRGPR------------GEGGAMSENIWSTLRLALSMLGQSDAYGAA  307 (323)
T ss_dssp             HHHHHHHH--HHTC------------------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHHh--CCcChhhh------------hhhHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99988752  11100000            111123445566666777777777655443

>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=99.33  E-value=5.9e-10  Score=95.60  Aligned_cols=212  Identities=12%  Similarity=-0.011  Sum_probs=107.2

Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH
Q 045379          128 AYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQK  207 (352)
Q Consensus       128 ~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  207 (352)
                      .+.+.|++++|...|++..+..+. +..+|..+..++...|++++|...|.+..+.. +-+...+..+...|...|++++
T Consensus        28 ~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~  105 (323)
T d1fcha_          28 RRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQ  105 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccccc
Confidence            355566666666666666554321 34556666666666666666666666655432 2344555555566666666666


Q ss_pred             HHHHHHHHHHcCCC--------------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhc
Q 045379          208 AVEIFQRMKRDCCQ--------------PSTETYTLMINLYGKASKSFMALKLFNEMRSHK-CKPNICTYTALVNAFARE  272 (352)
Q Consensus       208 a~~~~~~m~~~~~~--------------~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g-~~p~~~t~~~li~~~~~~  272 (352)
                      |.+.+++.......              .+.......+..+...+...+|.+.|.+..... -.++...+..+...+...
T Consensus       106 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~  185 (323)
T d1fcha_         106 ACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLS  185 (323)
T ss_dssp             HHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHT
T ss_pred             cccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHH
Confidence            66666555432100              000001111222223334444555554443321 122344445555555555


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------HHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          273 GLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYR----------LISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       273 g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~----------~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      |++++|...+++..+.. .-+...|..+-..+.          .++..-.--+-+...+..+..+|.+.|++++|++.|.
T Consensus       186 ~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~  264 (323)
T d1fcha_         186 GEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFL  264 (323)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            55555555555544321 112333333333322          2222211113367789999999999999999999986

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.96  E-value=2.4e-07  Score=79.00  Aligned_cols=216  Identities=8%  Similarity=-0.008  Sum_probs=127.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSG-LLEKAEAVFREMRKYGLPPSAVVYNSYIDGL  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  199 (352)
                      +|+.+-..+.+.+.+++|++++++..+..+. +...|+....++...| ++++|+..++...+.. +-+..+|+.+...+
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHH
Confidence            5555556666777777777777777764421 4556666666666655 3677777777766653 34566777777777


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-----
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGL-----  274 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~-----  274 (352)
                      .+.|++++|+..++++.+.. +-+..+|..+...+...|++++|++.+++..+.. +-+...|+.+...+.+.+.     
T Consensus       123 ~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~  200 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRA  200 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhh
Confidence            77777777777777776653 3356777777777777777777777777776653 2345566666555555444     


Q ss_pred             -HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH---------HHHHH--hcCCCCCHHHHHHHHHHHHHc--CCcchhHHH
Q 045379          275 -CEEAEEIFEQLQGAGIEPDVYAYNALMEAYR---------LISRM--HMGCEPDRASYNIMVDAYGRA--GLHEGKCSY  340 (352)
Q Consensus       275 -~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~---------~~~~m--~~~~~p~~~~~~~li~a~~~~--g~~~~A~~~  340 (352)
                       +++|.+.+.+..+.. .-+...|+.+...+.         .++..  ......+...+..++..|...  +..+.+...
T Consensus       201 ~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~  279 (315)
T d2h6fa1         201 VLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDI  279 (315)
T ss_dssp             HHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHH
T ss_pred             hhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHhcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence             566666666665442 123444443333322         22222  111223455566666665443  444444443


Q ss_pred             H
Q 045379          341 S  341 (352)
Q Consensus       341 ~  341 (352)
                      +
T Consensus       280 ~  280 (315)
T d2h6fa1         280 L  280 (315)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.90  E-value=2.9e-07  Score=78.09  Aligned_cols=154  Identities=12%  Similarity=0.086  Sum_probs=113.2

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHH
Q 045379          133 SLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIF  212 (352)
Q Consensus       133 g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~  212 (352)
                      +..++|..+|++..+...+.+...|...+....+.|+++.|..+|+.+.+........+|...+..+.+.|+++.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            45577888888877655555666777888888888888888888888877543334557888888888888888888888


Q ss_pred             HHHHHcCCCCCHHHHHHHHH-HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          213 QRMKRDCCQPSTETYTLMIN-LYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       213 ~~m~~~~~~~~~~~~~~li~-~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                      ++..+.+.. +...|..... -+...|+.+.|..+|+.+.+. .+.+...|...+....+.|+++.|..+|++..+.
T Consensus       158 ~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~  232 (308)
T d2onda1         158 KKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  232 (308)
T ss_dssp             HHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHS
T ss_pred             HHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHh
Confidence            888776432 3333433332 234567888888888888765 2445677888888888888888888888887765

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.90  E-value=4.2e-07  Score=77.09  Aligned_cols=166  Identities=13%  Similarity=0.057  Sum_probs=135.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-H
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDG-L  199 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~  199 (352)
                      .|...+....+.|++++|..+|+.+.+.........|...+..+.+.|..+.|.++|+.+.+.+. .+...|...... +
T Consensus       101 l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~-~~~~~~~~~a~~e~  179 (308)
T d2onda1         101 LYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEY  179 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CcHHHHHHHHHHHH
Confidence            67778888899999999999999998765544466899999999999999999999999988753 344444444433 4


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCC--HHHHHHHHHHHHhcCCHH
Q 045379          200 LKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHK-CKPN--ICTYTALVNAFAREGLCE  276 (352)
Q Consensus       200 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g-~~p~--~~t~~~li~~~~~~g~~~  276 (352)
                      ...|+.+.|..+|+...+. .+.+...|...+..+.+.|+.++|..+|++..... ..|.  ...|...+..-...|+.+
T Consensus       180 ~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~  258 (308)
T d2onda1         180 YCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLA  258 (308)
T ss_dssp             HTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHH
T ss_pred             HhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHH
Confidence            5568999999999999886 35578899999999999999999999999987653 3443  457888888888899999


Q ss_pred             HHHHHHHHHHHC
Q 045379          277 EAEEIFEQLQGA  288 (352)
Q Consensus       277 ~a~~l~~~m~~~  288 (352)
                      .+..+++++.+.
T Consensus       259 ~~~~~~~r~~~~  270 (308)
T d2onda1         259 SILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988653

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.89  E-value=2.3e-07  Score=79.04  Aligned_cols=209  Identities=6%  Similarity=-0.051  Sum_probs=147.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC----CchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccC-CHHHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP----PTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKS-LHKKAE  139 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~  139 (352)
                      +++.+...+.+.+..++|+.++++.-    .+..                          +|+.....+...| ++++|+
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~--------------------------a~~~r~~~l~~l~~~~~eal   98 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELNAANYT--------------------------VWHFRRVLLKSLQKDLHEEM   98 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHH--------------------------HHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChH--------------------------HHHHHHHHHHHhCcCHHHHH
Confidence            56777888899999999999998763    3333                          4455555555554 588888


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcC
Q 045379          140 FTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDC  219 (352)
Q Consensus       140 ~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  219 (352)
                      +.++...+.... +..+|..+...+.+.|++++|++.++.+.+.. +.+...|..+...+.+.|++++|...|++..+..
T Consensus        99 ~~~~~al~~~p~-~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~  176 (315)
T d2h6fa1          99 NYITAIIEEQPK-NYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED  176 (315)
T ss_dssp             HHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHh-hhhHHHHHhHHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC
Confidence            888888775532 67788888888888899999998888888753 4567888888888888888999999988888864


Q ss_pred             CCCCHHHHHHHHHHHHhcCC------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-C
Q 045379          220 CQPSTETYTLMINLYGKASK------SFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIE-P  292 (352)
Q Consensus       220 ~~~~~~~~~~li~~~~~~g~------~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~-p  292 (352)
                       +.+...|+.+...+.+.+.      +++|++.+....+.. +-+...|+.+...+.. ...+++.+.++...+.... .
T Consensus       177 -p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~  253 (315)
T d2h6fa1         177 -VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHS  253 (315)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCC
T ss_pred             -CccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcC
Confidence             3367778777666665554      567888887776653 3356677766655544 3457777777777654222 2


Q ss_pred             CHHHHHHHHHHH
Q 045379          293 DVYAYNALMEAY  304 (352)
Q Consensus       293 ~~~~~~~li~a~  304 (352)
                      +...+..+...|
T Consensus       254 ~~~~~~~l~~~y  265 (315)
T d2h6fa1         254 SPYLIAFLVDIY  265 (315)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            344555555544

>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=98.89  E-value=3.5e-07  Score=78.07  Aligned_cols=256  Identities=13%  Similarity=0.003  Sum_probs=125.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHhcCC----CCc-----hhhHHHHHHHHHHHhhccCcchhhHHhH--------------HHH
Q 045379           67 QQILRFVQREVDSNTIWDAFDSL----PPT-----HATWDDLINVSVQLRLNKKWDPIVLMSC--------------VSI  123 (352)
Q Consensus        67 ~~l~~~~~~~g~~~~A~~~~~~~----~~~-----~~~~~~l~~~~~~~~~~~~~~~~~~~~~--------------~~~  123 (352)
                      ......+...|++++|...+++.    |.+     ...++.+..++...|+.+.+...+....              ++.
T Consensus        16 ~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   95 (366)
T d1hz4a_          16 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   95 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHH
Confidence            44466677899999998888643    322     1233444444444444443333332211              344


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHh----CCCC--CC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCCHHHH
Q 045379          124 LLIEAYGQKSLHKKAEFTYLELLD----SRCI--PT-EDTYALLLKAYCMSGLLEKAEAVFREMRKY----GLPPSAVVY  192 (352)
Q Consensus       124 ~li~~~~~~g~~~~a~~l~~~m~~----~~~~--p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~~~~~~~  192 (352)
                      .+...+...|++..+...+.....    .+..  +. ...+..+...+...|+++.+...+......    +.......+
T Consensus        96 ~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  175 (366)
T d1hz4a_          96 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  175 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHH
Confidence            444555555555555555544432    1111  11 113334444555555555555555554432    111223334


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHc--CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC---CCHHHHH
Q 045379          193 NSYIDGLLKGGNPQKAVEIFQRMKRD--CCQP----STETYTLMINLYGKASKSFMALKLFNEMRSHKCK---PNICTYT  263 (352)
Q Consensus       193 ~~li~~~~~~g~~~~a~~~~~~m~~~--~~~~----~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~---p~~~t~~  263 (352)
                      ......+...+....+...+.+....  ....    ....+..+...+...|++++|...++........   .....+.
T Consensus       176 ~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  255 (366)
T d1hz4a_         176 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  255 (366)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            44444455555555555555443321  0000    1122344444555555555555555554332111   1123344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          264 ALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAYNALMEAYRLISRMHMGCEP-DRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       264 ~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~a~~~~~~m~~~~~p-~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                      .+..++...|++++|...+++....                  .+  ..+..| ....+..+..+|.+.|++++|.+.|.
T Consensus       256 ~la~~~~~~g~~~~A~~~~~~al~~------------------~~--~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~  315 (366)
T d1hz4a_         256 NIARAQILLGEFEPAEIVLEELNEN------------------AR--SLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLL  315 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH------------------HH--HTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH------------------Hh--hcccChHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            4455555555555555555554321                  00  112233 34567788899999999999999985

>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=98.78  E-value=1.3e-06  Score=71.47  Aligned_cols=165  Identities=13%  Similarity=0.028  Sum_probs=107.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      +|..+...|.+.|++++|.+.|++..+..+ -++.+|..+..++.+.|++++|.+.|++..+.. +.+..++..+..+|.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCC-CCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHH
Confidence            556666778888888888888888876443 256678888888888888888888888877753 234566777777888


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-------------------------
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKC-------------------------  255 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~-------------------------  255 (352)
                      ..|++++|...|++..+.. +.+......+..++.+.+..+.+..+........-                         
T Consensus       117 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  195 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLK  195 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            8888888888888777653 22333333333333333333333333222221100                         


Q ss_pred             ---------CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          256 ---------KPN-ICTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       256 ---------~p~-~~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                               .|+ ..+|..+...|...|++++|...|++....
T Consensus       196 ~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         196 ADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             HHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence                     011 124566778889999999999999998865

>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=98.77  E-value=9.1e-07  Score=72.52  Aligned_cols=205  Identities=14%  Similarity=-0.004  Sum_probs=144.7

Q ss_pred             CCHHHHHHHHHHHHhCCC-CC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHH
Q 045379          133 SLHKKAEFTYLELLDSRC-IP--TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAV  209 (352)
Q Consensus       133 g~~~~a~~l~~~m~~~~~-~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~  209 (352)
                      ++.+.++.-+++...... .+  ...+|..+..+|.+.|++++|...|++..+.. +-+..+|..+..+|.+.|++++|.
T Consensus        13 ~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~   91 (259)
T d1xnfa_          13 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   91 (259)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhh
Confidence            345566666777765432 11  23377788889999999999999999998863 457889999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 045379          210 EIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAG  289 (352)
Q Consensus       210 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~  289 (352)
                      ..|++..+.. +-+..++..+..+|...|++++|.+.|+...+.. +.+......+...+.+.+..+.+..+........
T Consensus        92 ~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (259)
T d1xnfa_          92 EAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD  169 (259)
T ss_dssp             HHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC
T ss_pred             hhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc
Confidence            9999999864 3356788899999999999999999999988753 3345555555566666777666666666665543


Q ss_pred             CCCCHHHHHHHHHHHH-------HHHHHhcC------CCC-CHHHHHHHHHHHHHcCCcchhHHHHHH
Q 045379          290 IEPDVYAYNALMEAYR-------LISRMHMG------CEP-DRASYNIMVDAYGRAGLHEGKCSYSLV  343 (352)
Q Consensus       290 ~~p~~~~~~~li~a~~-------~~~~m~~~------~~p-~~~~~~~li~a~~~~g~~~~A~~~~~~  343 (352)
                      ..+..  ++. +..+.       .+......      ..| ...+|..+...|...|++++|.+.|..
T Consensus       170 ~~~~~--~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~  234 (259)
T d1xnfa_         170 KEQWG--WNI-VEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKL  234 (259)
T ss_dssp             CCSTH--HHH-HHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhhhh--hhH-HHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            22221  111 11111       22222111      112 235677889999999999999999973

>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=98.65  E-value=3.6e-06  Score=71.45  Aligned_cols=256  Identities=6%  Similarity=-0.073  Sum_probs=174.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC------Cc----hhhHHHHHHHHHHHhhccCcchhhHHh---------------
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP------PT----HATWDDLINVSVQLRLNKKWDPIVLMS---------------  119 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~------~~----~~~~~~l~~~~~~~~~~~~~~~~~~~~---------------  119 (352)
                      .+..+...|...|++++|...|++..      ++    ...+..+...+...++...+...+...               
T Consensus        53 a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~  132 (366)
T d1hz4a_          53 ATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMH  132 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHH
Confidence            56778899999999999999997652      11    123333334444444433333222211               


Q ss_pred             -HHHHHHHHHHHccCCHHHHHHHHHHHHhCC----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCCC----C
Q 045379          120 -CVSILLIEAYGQKSLHKKAEFTYLELLDSR----CIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY--GLPP----S  188 (352)
Q Consensus       120 -~~~~~li~~~~~~g~~~~a~~l~~~m~~~~----~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~~----~  188 (352)
                       ..+..+...+...|+++.+...+.......    ......++......+...++...+...+.+....  ....    .
T Consensus       133 ~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~  212 (366)
T d1hz4a_         133 EFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWI  212 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHH
T ss_pred             HHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchH
Confidence             156667788999999999999998887532    2234557777778888999999999888776542  1111    1


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCC-HH
Q 045379          189 AVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQ---PSTETYTLMINLYGKASKSFMALKLFNEMRS----HKCKPN-IC  260 (352)
Q Consensus       189 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~----~g~~p~-~~  260 (352)
                      ...+..+...+...|++++|...+++..+....   .....+..+..++...|++++|...+++...    .+..|+ ..
T Consensus       213 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  292 (366)
T d1hz4a_         213 SNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNR  292 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHH
Confidence            344666777888999999999999987654322   2345677788999999999999999998753    344444 34


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcch
Q 045379          261 TYTALVNAFAREGLCEEAEEIFEQLQGA----GIEPDVYAYNALMEAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEG  336 (352)
Q Consensus       261 t~~~li~~~~~~g~~~~a~~l~~~m~~~----~~~p~~~~~~~li~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~  336 (352)
                      ++..+...|.+.|++++|.+.+++..+.    |..   .+   +              .-.......++..+...|+.++
T Consensus       293 ~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~---~~---~--------------~~~~~~~~~~~~~l~~~~~l~e  352 (366)
T d1hz4a_         293 NLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFI---SH---F--------------VIEGEAMAQQLRQLIQLNTLPE  352 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCC---HH---H--------------HTTHHHHHHHHHHHHHTTCSCH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcH---HH---H--------------HHHHHHHHHHHHHHHhcCCChH
Confidence            6778889999999999999999987542    110   00   0              1123445567777888888888


Q ss_pred             hHHH
Q 045379          337 KCSY  340 (352)
Q Consensus       337 A~~~  340 (352)
                      +.+-
T Consensus       353 ~e~~  356 (366)
T d1hz4a_         353 LEQH  356 (366)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.63  E-value=2e-06  Score=67.37  Aligned_cols=128  Identities=15%  Similarity=-0.042  Sum_probs=94.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .|+- ...+...|++++|++.|.++    .+|++.+|..+-.++...|++++|++.|++..+.. +.+...|..+-.+|.
T Consensus         8 l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~   81 (192)
T d1hh8a_           8 LWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   81 (192)
T ss_dssp             HHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHH
Confidence            4554 45567888999999888764    33778888888899999999999999999888764 456778888888888


Q ss_pred             cCCCHHHHHHHHHHHHHcC------------CC--CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 045379          201 KGGNPQKAVEIFQRMKRDC------------CQ--PS-TETYTLMINLYGKASKSFMALKLFNEMRSHK  254 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~------------~~--~~-~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g  254 (352)
                      +.|++++|...|++..+..            ..  ++ ..++..+-.++.+.|++++|.+.+.......
T Consensus        82 ~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          82 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             hhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            9999999998888876421            10  11 2445566667777777877777777766543

>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=98.56  E-value=5.8e-06  Score=64.69  Aligned_cols=132  Identities=16%  Similarity=-0.001  Sum_probs=106.9

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 045379          161 LKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKS  240 (352)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  240 (352)
                      ...+...|+++.|++.|++.    .+|+..+|..+-.+|...|++++|++.|++.++.. +-+...|..+-.+|.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            34567899999999999864    45778899999999999999999999999998875 44788999999999999999


Q ss_pred             HHHHHHHHHHHhCC------------C--CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 045379          241 FMALKLFNEMRSHK------------C--KPN-ICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDVYAY  297 (352)
Q Consensus       241 ~~a~~l~~~m~~~g------------~--~p~-~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~  297 (352)
                      ++|++.|++.....            .  +++ ..++..+..++.+.|++++|.+.+....+....|.....
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~  158 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKI  158 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHH
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHH
Confidence            99999999876431            1  111 356777888999999999999999998876544433333

>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=98.50  E-value=5.3e-06  Score=69.43  Aligned_cols=207  Identities=11%  Similarity=-0.021  Sum_probs=138.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHH
Q 045379           64 PTAQQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYL  143 (352)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~  143 (352)
                      ..|......|..+|++++|...|.+.          +..+.+.++.      .....+|+.+..+|.+.|++++|.+.++
T Consensus        38 ~~y~~aa~~y~~~~~~~~A~~~y~kA----------~~~~~~~~~~------~~~a~~~~~~g~~y~~~~~~~~A~~~~~  101 (290)
T d1qqea_          38 DLCVQAATIYRLRKELNLAGDSFLKA----------ADYQKKAGNE------DEAGNTYVEAYKCFKSGGNSVNAVDSLE  101 (290)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHH----------HHHHHHTTCH------HHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHH----------HHHHHHcCCC------HHHHHHHHHHHHHHHHhCCcHHHHHHHH
Confidence            36778888899999999998887653          2222221111      1112278888889999999999999998


Q ss_pred             HHHhC----CC-CCCHHHHHHHHHHHHH-cCCHHHHHHHHHHHHH----CCCCC-CHHHHHHHHHHHHcCCCHHHHHHHH
Q 045379          144 ELLDS----RC-IPTEDTYALLLKAYCM-SGLLEKAEAVFREMRK----YGLPP-SAVVYNSYIDGLLKGGNPQKAVEIF  212 (352)
Q Consensus       144 ~m~~~----~~-~p~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~----~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~  212 (352)
                      +..+.    |- .....++..+...|-. .|++++|.+.+.+..+    .+.++ ...++..+...|...|++++|...|
T Consensus       102 ~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~  181 (290)
T d1qqea_         102 NAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIY  181 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHH
Confidence            76542    11 1123466667777755 5999999999988754    22222 2356788899999999999999999


Q ss_pred             HHHHHcCCCC-----CH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC---HHHHHHHHHHHHh--cCCHHHHHH
Q 045379          213 QRMKRDCCQP-----ST-ETYTLMINLYGKASKSFMALKLFNEMRSHKCK-PN---ICTYTALVNAFAR--EGLCEEAEE  280 (352)
Q Consensus       213 ~~m~~~~~~~-----~~-~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~-p~---~~t~~~li~~~~~--~g~~~~a~~  280 (352)
                      ++........     .. ..+..++..+...|+++.|...+++..+.... ++   ......++.++..  .+.+++|+.
T Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~  261 (290)
T d1qqea_         182 SKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCK  261 (290)
T ss_dssp             HHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHH
T ss_pred             HHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            9987643211     11 22345556777889999999999998765311 12   2345667777665  345888888


Q ss_pred             HHHHHH
Q 045379          281 IFEQLQ  286 (352)
Q Consensus       281 l~~~m~  286 (352)
                      .|+++.
T Consensus       262 ~y~~~~  267 (290)
T d1qqea_         262 EFDNFM  267 (290)
T ss_dssp             HHTTSS
T ss_pred             HHHHHh
Confidence            886654

>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=98.41  E-value=7.4e-06  Score=68.50  Aligned_cols=168  Identities=12%  Similarity=0.043  Sum_probs=123.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CC-CCCHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDS----RCIP-TEDTYALLLKAYCMSGLLEKAEAVFREMRKY----GL-PPSAV  190 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~~~~~  190 (352)
                      .|......|...|++++|.+.|.+..+.    +-++ -..+|..+..+|.+.|++++|.+.+++..+.    |. .....
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            6777788899999999999999988652    2222 2358899999999999999999999887542    21 11245


Q ss_pred             HHHHHHHHHH-cCCCHHHHHHHHHHHHH----cCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----CCH
Q 045379          191 VYNSYIDGLL-KGGNPQKAVEIFQRMKR----DCCQP-STETYTLMINLYGKASKSFMALKLFNEMRSHKCK-----PNI  259 (352)
Q Consensus       191 ~~~~li~~~~-~~g~~~~a~~~~~~m~~----~~~~~-~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~-----p~~  259 (352)
                      ++..+...|. ..|++++|...+++..+    .+.++ ...++..+...|...|++++|.+.|++.......     ...
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~  198 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhH
Confidence            5666666674 46999999999988754    22111 1356788999999999999999999998764321     111


Q ss_pred             -HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 045379          260 -CTYTALVNAFAREGLCEEAEEIFEQLQGA  288 (352)
Q Consensus       260 -~t~~~li~~~~~~g~~~~a~~l~~~m~~~  288 (352)
                       ..+...+..+...|+++.|.+.+.+..+.
T Consensus       199 ~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         199 KDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence             22445556777899999999999998765

>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=98.38  E-value=4.5e-07  Score=77.72  Aligned_cols=254  Identities=8%  Similarity=-0.031  Sum_probs=161.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHH
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEF  140 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  140 (352)
                      ....+.....+....++|+.++++.    |.+...|+..-..+...+..                ...+...|++++|+.
T Consensus        31 ~~~~~~~~~~~~~~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~----------------~~~~~~~~~~~~al~   94 (334)
T d1dcea1          31 ATQAVFQKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETE----------------KSPEESAALVKAELG   94 (334)
T ss_dssp             HHHHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTT----------------SCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhh----------------cchHHHHHHHHHHHH
Confidence            3455555555544557888888754    34555676555444333322                223456677889999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHcCCCHHHHHHHHHHHHH
Q 045379          141 TYLELLDSRCIPTEDTYALLLKAYCMSG--LLEKAEAVFREMRKYGLPPSAVVYN-SYIDGLLKGGNPQKAVEIFQRMKR  217 (352)
Q Consensus       141 l~~~m~~~~~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~~~~~~~~-~li~~~~~~g~~~~a~~~~~~m~~  217 (352)
                      +++...+..+ -+...|..+..++...+  ++++|...+..+.+.. +++...+. .....+...+.+++|...++...+
T Consensus        95 ~~~~~l~~~p-k~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~  172 (334)
T d1dcea1          95 FLESCLRVNP-KSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLIT  172 (334)
T ss_dssp             HHHHHHHHCT-TCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTT
T ss_pred             HHHHHHHhCC-CcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHH
Confidence            9999887553 36777887777777765  4889999999988764 34455554 455777888999999999999888


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-----
Q 045379          218 DCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEP-----  292 (352)
Q Consensus       218 ~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-----  292 (352)
                      .. +-+..+|+.+...+.+.|++++|...++...+.  .|+   ...+...+...+..+++...+..........     
T Consensus       173 ~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~  246 (334)
T d1dcea1         173 RN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCE  246 (334)
T ss_dssp             TT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCC
T ss_pred             cC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHH
Confidence            75 347889999999999999988776555443321  111   1223334455666677777777766542111     


Q ss_pred             -CHHHHHHHH---HHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchhHHHHH
Q 045379          293 -DVYAYNALM---EAYRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGKCSYSL  342 (352)
Q Consensus       293 -~~~~~~~li---~a~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A~~~~~  342 (352)
                       -...+..+-   .++..+......-+.+...+..+..+|.+.|+.++|.++|.
T Consensus       247 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~  300 (334)
T d1dcea1         247 LSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFS  300 (334)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence             111111111   22223333322223356778888999999999999999986

>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=98.31  E-value=1.2e-05  Score=57.35  Aligned_cols=89  Identities=17%  Similarity=0.049  Sum_probs=48.2

Q ss_pred             HHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 045379          197 DGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCE  276 (352)
Q Consensus       197 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~  276 (352)
                      +.+.+.|++++|...|++..+.. +-+...|..+-.+|...|++++|+..++...+.. +.+...|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            34445555555555555555442 3344555555555555555555555555555432 334455555555555555555


Q ss_pred             HHHHHHHHHHH
Q 045379          277 EAEEIFEQLQG  287 (352)
Q Consensus       277 ~a~~l~~~m~~  287 (352)
                      +|...|++..+
T Consensus        89 ~A~~~~~~a~~   99 (117)
T d1elwa_          89 EAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            55555555554

>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=98.29  E-value=1.1e-05  Score=62.97  Aligned_cols=99  Identities=15%  Similarity=0.047  Sum_probs=80.1

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 045379          152 PTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMI  231 (352)
Q Consensus       152 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  231 (352)
                      |+...+...-..+.+.|++++|+..|.+..+.. +.+...|..+..+|.+.|++++|...|++..+.. +-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            777778888888888888888888888887763 5567788888888888888888888888887652 23577888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh
Q 045379          232 NLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       232 ~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      .+|...|++++|+..|++..+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            888888888888888887754

>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=98.29  E-value=1.8e-05  Score=56.29  Aligned_cols=90  Identities=14%  Similarity=-0.014  Sum_probs=49.4

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHH
Q 045379          127 EAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQ  206 (352)
Q Consensus       127 ~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  206 (352)
                      ..+.+.|++++|+..|.+..+..+ -+...|..+..++...|++++|+..+....+.+ +.+...|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCC-cchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            445555666666666666554332 244455555555555566666666555555542 344555555555555555555


Q ss_pred             HHHHHHHHHHHc
Q 045379          207 KAVEIFQRMKRD  218 (352)
Q Consensus       207 ~a~~~~~~m~~~  218 (352)
                      +|...|++..+.
T Consensus        89 ~A~~~~~~a~~~  100 (117)
T d1elwa_          89 EAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            555555555543

>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=98.28  E-value=3.5e-05  Score=57.94  Aligned_cols=94  Identities=11%  Similarity=-0.041  Sum_probs=59.1

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 045379          123 ILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKG  202 (352)
Q Consensus       123 ~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  202 (352)
                      ......|.+.|++++|+..|.+..+... -+...|..+..+|...|++++|...|+...+.. +.+...|..+..+|...
T Consensus        14 ~~~gn~~~~~~~y~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~   91 (159)
T d1a17a_          14 KTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMAL   91 (159)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHhhhccccch-hhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHc
Confidence            3344556667777777777776665442 255566666666666667777766666666543 33445666666666666


Q ss_pred             CCHHHHHHHHHHHHHc
Q 045379          203 GNPQKAVEIFQRMKRD  218 (352)
Q Consensus       203 g~~~~a~~~~~~m~~~  218 (352)
                      |++++|...+++..+.
T Consensus        92 g~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          92 GKFRAALRDYETVVKV  107 (159)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHc
Confidence            6666666666666654

>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=98.26  E-value=1.3e-05  Score=62.70  Aligned_cols=92  Identities=14%  Similarity=-0.091  Sum_probs=70.7

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC
Q 045379          124 LLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGG  203 (352)
Q Consensus       124 ~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  203 (352)
                      .....|.+.|++++|+..|.+..+..+ -++..|..+..+|.+.|++++|...|+...+.. +-+..+|..+..+|.+.|
T Consensus         9 ~~Gn~~~~~g~~~~Ai~~~~kal~~~p-~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg~~~~~l~   86 (201)
T d2c2la1           9 EQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEME   86 (201)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHHHHHHHCC
Confidence            345677888888888888888776543 367778888888888888888888888887642 335677888888888888


Q ss_pred             CHHHHHHHHHHHHH
Q 045379          204 NPQKAVEIFQRMKR  217 (352)
Q Consensus       204 ~~~~a~~~~~~m~~  217 (352)
                      ++++|...|++..+
T Consensus        87 ~~~~A~~~~~~al~  100 (201)
T d2c2la1          87 SYDEAIANLQRAYS  100 (201)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            88888888887665

>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=98.26  E-value=4.1e-05  Score=57.56  Aligned_cols=119  Identities=13%  Similarity=0.021  Sum_probs=88.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 045379          160 LLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASK  239 (352)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  239 (352)
                      --..|.+.|++++|...|++..+.. +.+...|..+..+|...|++++|...|++.++.. +-+..+|..+..+|...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            3456889999999999999988874 5578888899999999999999999999988764 4467889999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCCHHHHHHH
Q 045379          240 SFMALKLFNEMRSHKCKPNICTYTALVNA--FAREGLCEEAEEI  281 (352)
Q Consensus       240 ~~~a~~l~~~m~~~g~~p~~~t~~~li~~--~~~~g~~~~a~~l  281 (352)
                      +++|...+++..... +-+...+..+-..  ....+.+++|...
T Consensus        94 ~~eA~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          94 FRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999987753 2234433333222  2333445555443

>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=98.06  E-value=2.9e-05  Score=54.71  Aligned_cols=85  Identities=18%  Similarity=0.135  Sum_probs=42.3

Q ss_pred             HHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 045379          198 GLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEE  277 (352)
Q Consensus       198 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~  277 (352)
                      .+.+.|++++|...|++..+.. +-+..+|..+..++.+.|++++|+..|++..+.. +-+...|..+...|...|++++
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~~  102 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANA  102 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHHH
Confidence            3444555555555555544432 2234555555555555555555555555544432 2234455555555555555555


Q ss_pred             HHHHHHH
Q 045379          278 AEEIFEQ  284 (352)
Q Consensus       278 a~~l~~~  284 (352)
                      |.+.+++
T Consensus       103 A~~~l~~  109 (112)
T d1hxia_         103 ALASLRA  109 (112)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555544

>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=98.05  E-value=2.1e-05  Score=56.40  Aligned_cols=93  Identities=16%  Similarity=-0.003  Sum_probs=47.0

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHhCCCCCC-HHHHHHHHHHH
Q 045379          194 SYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKS---FMALKLFNEMRSHKCKPN-ICTYTALVNAF  269 (352)
Q Consensus       194 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~---~~a~~l~~~m~~~g~~p~-~~t~~~li~~~  269 (352)
                      .+++.+...+++++|++.|++..+.+ +.+..++..+..++.+.++.   ++|+.+++++......|+ ..++..+..+|
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            34445555555555555555555543 33445555555555543333   345555555544322222 12445555555


Q ss_pred             HhcCCHHHHHHHHHHHHH
Q 045379          270 AREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       270 ~~~g~~~~a~~l~~~m~~  287 (352)
                      .+.|++++|.+.|+++.+
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            556666666666655554

>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=98.03  E-value=4.6e-05  Score=53.59  Aligned_cols=88  Identities=9%  Similarity=-0.039  Sum_probs=56.7

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 045379          161 LKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKS  240 (352)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  240 (352)
                      ...+.+.|++++|...|++..+.. +-+...|..+..++.+.|++++|+..|++..+.. +.+..+|..+...|...|++
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCH
Confidence            445566667777777776666543 2356666666666777777777777777666543 33566666777777777777


Q ss_pred             HHHHHHHHHH
Q 045379          241 FMALKLFNEM  250 (352)
Q Consensus       241 ~~a~~l~~~m  250 (352)
                      ++|++.+++.
T Consensus       101 ~~A~~~l~~~  110 (112)
T d1hxia_         101 NAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777766654

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.99  E-value=3.2e-05  Score=55.37  Aligned_cols=93  Identities=14%  Similarity=0.073  Sum_probs=45.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH---HHHHHHHHHHHHcCCCCC-HHHHHHHHHHH
Q 045379          159 LLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNP---QKAVEIFQRMKRDCCQPS-TETYTLMINLY  234 (352)
Q Consensus       159 ~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~---~~a~~~~~~m~~~~~~~~-~~~~~~li~~~  234 (352)
                      .+++.+...+++++|++.|+...+.+ +.+..++..+..++.+.++.   ++|..+|++..+....|+ ..++..+..+|
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            34445555555555555555555543 23445555555555543332   235555555554322222 12444555555


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 045379          235 GKASKSFMALKLFNEMRS  252 (352)
Q Consensus       235 ~~~g~~~~a~~l~~~m~~  252 (352)
                      .+.|++++|++.|++..+
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            555555555555555554

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.89  E-value=0.00051  Score=51.93  Aligned_cols=111  Identities=10%  Similarity=-0.061  Sum_probs=68.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .+......+.+.|++++|...|.+..+......              +..+.-......+.       ..+|+.+..+|.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~--------------~~~~~~~~~~~~~~-------~~~~~nla~~y~   73 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYES--------------SFSNEEAQKAQALR-------LASHLNLAMCHL   73 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCC--------------CCCSHHHHHHHHHH-------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhcc--------------ccchHHHhhhchhH-------HHHHHHHHHHHH
Confidence            555566677777777777777776654211000              00000000011110       235666777788


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      +.|++++|+..++..++.. +.++.++..+..+|...|++++|+..|++..+.
T Consensus        74 k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          74 KLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            8888888888888877763 336777888888888888888888888887664

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.89  E-value=0.00041  Score=52.50  Aligned_cols=79  Identities=9%  Similarity=-0.094  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 045379          155 DTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLY  234 (352)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  234 (352)
                      .+|+.+..+|.+.|++++|+..++...+.. |.+...+..+..+|...|++++|...|++..+.. +-+......+-...
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~  140 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQ  140 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            467778888999999999999999888764 4578888889999999999999999999988763 22455554444443


Q ss_pred             H
Q 045379          235 G  235 (352)
Q Consensus       235 ~  235 (352)
                      -
T Consensus       141 ~  141 (170)
T d1p5qa1         141 Q  141 (170)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.85  E-value=4.7e-06  Score=71.11  Aligned_cols=218  Identities=10%  Similarity=0.002  Sum_probs=126.4

Q ss_pred             cCCHHHHHHHhcCC----CCchhhHHHHHHHHHHHhhccCcchhhHHhH-----------HHH-HHHHHHHccCCHHHHH
Q 045379           76 EVDSNTIWDAFDSL----PPTHATWDDLINVSVQLRLNKKWDPIVLMSC-----------VSI-LLIEAYGQKSLHKKAE  139 (352)
Q Consensus        76 ~g~~~~A~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-----------~~~-~li~~~~~~g~~~~a~  139 (352)
                      .|.+++|+..|+..    |.+...|.....++...++.. +.+....+.           .|. .....+...|.+++|+
T Consensus        86 ~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~~-~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al  164 (334)
T d1dcea1          86 AALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPN-WARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEEL  164 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCC-HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhcccc-HHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHH
Confidence            34466777776654    356666766666555444311 111111111           332 2334555566677777


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcC
Q 045379          140 FTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDC  219 (352)
Q Consensus       140 ~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  219 (352)
                      ..++...+..+ -+...|+.+..++.+.|++++|...+....+.  .|   ....+...+...+..+++...+.......
T Consensus       165 ~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~---~~~~~~~~~~~l~~~~~a~~~~~~~l~~~  238 (334)
T d1dcea1         165 AFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LL---KELELVQNAFFTDPNDQSAWFYHRWLLGR  238 (334)
T ss_dssp             HHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HH---HHHHHHHHHHHHCSSCSHHHHHHHHHHSC
T ss_pred             HHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HH---HHHHHHHHHHHhcchhHHHHHHHHHHHhC
Confidence            76666665543 25556666666666666666554433322221  00   11122233344455566666666655542


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHH
Q 045379          220 CQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPDV-YAYN  298 (352)
Q Consensus       220 ~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~-~~~~  298 (352)
                       +++...+..+...+...|+.++|...+.+..... +-+..++..+...|...|+.++|.+.+++..+.  .|+. .-|.
T Consensus       239 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~  314 (334)
T d1dcea1         239 -AEPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLD  314 (334)
T ss_dssp             -CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHH
T ss_pred             -cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHH
Confidence             3345556667777788899999999998877553 224567888888999999999999999999864  5543 3344


Q ss_pred             HHHHHH
Q 045379          299 ALMEAY  304 (352)
Q Consensus       299 ~li~a~  304 (352)
                      .+-..+
T Consensus       315 ~L~~~~  320 (334)
T d1dcea1         315 DLRSKF  320 (334)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            443333

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.80  E-value=0.00052  Score=52.41  Aligned_cols=59  Identities=10%  Similarity=0.153  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      .+..+...+.+.|++++|...+++..+.. +-+...|..++.+|.+.|+.++|++.|+++
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            34444445555555555555555544432 234445555555555555555555555444

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.74  E-value=0.00035  Score=50.14  Aligned_cols=96  Identities=13%  Similarity=0.050  Sum_probs=64.5

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCC----HHHHHHH
Q 045379          122 SILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYG--LPPS----AVVYNSY  195 (352)
Q Consensus       122 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~~~----~~~~~~l  195 (352)
                      +-.+...+.+.|++++|++.|.+..+.+. .+...+..+..+|.+.|++++|...++++.+..  ....    ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            34456677778888888888887776543 356677778888888888888888887766521  1111    2355666


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHc
Q 045379          196 IDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       196 i~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      -..+...+++++|...|++....
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            66677777777777777766543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.73  E-value=0.0004  Score=49.79  Aligned_cols=92  Identities=11%  Similarity=0.085  Sum_probs=46.8

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CC---CC-HHHHHHHHHH
Q 045379          195 YIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHK--CK---PN-ICTYTALVNA  268 (352)
Q Consensus       195 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g--~~---p~-~~t~~~li~~  268 (352)
                      +-..|.+.|++++|...|.+.++.+ +.+..++..+..+|.+.|++++|++.+++..+..  ..   +. ..+|..+-..
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555555542 2345555555555555566555555555544311  00   00 1244555555


Q ss_pred             HHhcCCHHHHHHHHHHHHH
Q 045379          269 FAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       269 ~~~~g~~~~a~~l~~~m~~  287 (352)
                      +...+++++|.+.|.+...
T Consensus        89 ~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            5556666666666655443

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.72  E-value=0.00049  Score=52.58  Aligned_cols=121  Identities=12%  Similarity=0.041  Sum_probs=86.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 045379          159 LLLKAYCMSGLLEKAEAVFREMRKY--GLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGK  236 (352)
Q Consensus       159 ~li~~~~~~g~~~~a~~~~~~m~~~--g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  236 (352)
                      .........|++++|.+.|.+....  |-...            .....+.+...-..+...    ....+..+..++.+
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~------------~~~~~~w~~~~r~~l~~~----~~~a~~~la~~~~~   79 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREWRGPVLD------------DLRDFQFVEPFATALVED----KVLAHTAKAEAEIA   79 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTG------------GGTTSTTHHHHHHHHHHH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcccccc------------cCcchHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            3445677889999999999888764  21110            001111112222222222    34578889999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHH
Q 045379          237 ASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQG-----AGIEPDVYA  296 (352)
Q Consensus       237 ~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~-----~~~~p~~~~  296 (352)
                      .|++++|+..++...... +-+...|..++.+|.+.|+.++|++.|+++.+     .|+.|+..+
T Consensus        80 ~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          80 CGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            999999999999998753 56888999999999999999999999999853     488888765

>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=97.70  E-value=0.00052  Score=51.75  Aligned_cols=128  Identities=10%  Similarity=-0.063  Sum_probs=74.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      .+......+.+.|++++|++.|.+..+.            ...............+        -+.....+..+..+|.
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~~~~~~--------~~~~~~~~~nla~~~~   88 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDADGAKL--------QPVALSCVLNIGACKL   88 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHHHHGGG--------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhHHHHHh--------ChhhHHHHHHHHHHHH
Confidence            4455566788899999999988876531            0000000111110000        0113345666667777


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFA  270 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~  270 (352)
                      +.|++++|+..+.+.++.. +.+..+|..+..+|...|++++|++.|+...+.. +.+......+.....
T Consensus        89 ~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~~~  156 (169)
T d1ihga1          89 KMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQ  156 (169)
T ss_dssp             HTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             hhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            7777777777777777653 3456677777777777777777777777776642 224444444444433

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.68  E-value=0.0015  Score=48.28  Aligned_cols=63  Identities=8%  Similarity=-0.159  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          190 VVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       190 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      .+|+.+..+|.+.|++++|...+++..+.. +.+..+|..+..++...|++++|+..|+...+.
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456666677777777777777777766653 446677777777777777777777777776654

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.66  E-value=0.0015  Score=48.23  Aligned_cols=108  Identities=13%  Similarity=-0.088  Sum_probs=85.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCC----CCC-----------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRC----IPT-----------EDTYALLLKAYCMSGLLEKAEAVFREMRKYGL  185 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~----~p~-----------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  185 (352)
                      .+..-...+.+.|++.+|+..|.+..+.-.    .++           ..+|+.+..+|.+.|++++|++.++...+.. 
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            566667788899999999999998875321    112           2467788899999999999999999998864 


Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 045379          186 PPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLM  230 (352)
Q Consensus       186 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  230 (352)
                      +.+..+|..+..+|...|++++|...|++..+.. |-+..+.+.+
T Consensus        98 p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~-P~n~~~~~~l  141 (153)
T d2fbna1          98 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSY  141 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            5678999999999999999999999999998863 2244444433

>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=97.61  E-value=0.0036  Score=46.84  Aligned_cols=110  Identities=11%  Similarity=-0.079  Sum_probs=70.7

Q ss_pred             hHHHHHHHHHHHccCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 045379          119 SCVSILLIEAYGQKSLHKKAEFTYLELLDS---RCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSY  195 (352)
Q Consensus       119 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l  195 (352)
                      ...+.-....+.+.|++++|.+.|.+....   ...++..                . ......+       ....|+.+
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~----------------~-~~~~~~~-------~~~~~~Nl   70 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEK----------------E-SKASESF-------LLAAFLNL   70 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHH----------------H-HHHHHHH-------HHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchh----------------h-hhhcchh-------HHHHHHhH
Confidence            335666677777777777777777665431   1111110                0 0011111       12456667


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          196 IDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       196 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      ..+|.+.|++++|+..+++..+.. +.+..+|..+..+|...|++++|+..|++..+.
T Consensus        71 a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          71 AMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            777888888888888888877753 456778888888888888888888888888765

>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=97.60  E-value=0.00081  Score=50.63  Aligned_cols=123  Identities=12%  Similarity=0.046  Sum_probs=83.5

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 045379          158 ALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGKA  237 (352)
Q Consensus       158 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  237 (352)
                      ......+...|++++|.+.|.+..+.            ..............    .+.    +.....+..+..+|.+.
T Consensus        31 ~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~~~~----~~~----~~~~~~~~nla~~~~~~   90 (169)
T d1ihga1          31 KNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDADGA----KLQ----PVALSCVLNIGACKLKM   90 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHHHHG----GGH----HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhHHHH----HhC----hhhHHHHHHHHHHHHhh
Confidence            34455677888888888888776531            00000000101000    000    22456788889999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHH
Q 045379          238 SKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEP-DVYAYNALMEA  303 (352)
Q Consensus       238 g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p-~~~~~~~li~a  303 (352)
                      |++++|+..+++..+.. +.+...|..+..+|...|++++|.+.|++..+.  .| +......+-.+
T Consensus        91 ~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l~~~  154 (169)
T d1ihga1          91 SDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKV  154 (169)
T ss_dssp             TCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             cccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            99999999999998764 457788999999999999999999999999875  34 44444444433

>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=97.50  E-value=0.0039  Score=46.65  Aligned_cols=83  Identities=11%  Similarity=-0.041  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 045379          154 EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTETYTLMINL  233 (352)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  233 (352)
                      ...|+.+..+|.+.|++++|+..++...+.. +.+...|..+..+|...|++++|...|++..+.. +.+......+-..
T Consensus        64 ~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~  141 (168)
T d1kt1a1          64 LAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMC  141 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3467778888899999999999999988763 5678888888999999999999999999988753 3344555444444


Q ss_pred             HHhcC
Q 045379          234 YGKAS  238 (352)
Q Consensus       234 ~~~~g  238 (352)
                      ....+
T Consensus       142 ~~~~~  146 (168)
T d1kt1a1         142 QKKAK  146 (168)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            33333

>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=97.37  E-value=0.017  Score=48.23  Aligned_cols=77  Identities=10%  Similarity=-0.024  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          121 VSILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       121 ~~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      +|..+...+.+.....-|     .+.......++.....++..|-..|.+++...+++..... -..+...++.++..|+
T Consensus        71 ~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lya  144 (336)
T d1b89a_          71 TWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYS  144 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHH
Confidence            455555555555444332     2222333345555556666666666666666666655432 2344555666666666


Q ss_pred             cCC
Q 045379          201 KGG  203 (352)
Q Consensus       201 ~~g  203 (352)
                      +.+
T Consensus       145 k~~  147 (336)
T d1b89a_         145 KFK  147 (336)
T ss_dssp             TTC
T ss_pred             HhC
Confidence            653

>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=97.29  E-value=0.00027  Score=57.72  Aligned_cols=52  Identities=25%  Similarity=0.271  Sum_probs=28.8

Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 045379          166 MSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       166 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      +.|++++|+..+++..+.. +.+...+..+...|+..|++++|.+.|+...+.
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            3455555555555555542 344555555555566666666666555555544

>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=97.29  E-value=0.028  Score=44.89  Aligned_cols=216  Identities=14%  Similarity=-0.036  Sum_probs=132.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHhcCCC--CchhhHHHHHHHHHHHhhcc-CcchhhHHhH---------HHHHHHHHHHc-
Q 045379           65 TAQQILRFVQREVDSNTIWDAFDSLP--PTHATWDDLINVSVQLRLNK-KWDPIVLMSC---------VSILLIEAYGQ-  131 (352)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~l~~~~~~~~~~~-~~~~~~~~~~---------~~~~li~~~~~-  131 (352)
                      .+..|...+.+.||+++|++.|++..  .+...+-.|...+..-.... ..........         .+..+...+.. 
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~~~~   83 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSG   83 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccccchhhccccccccc
Confidence            45667778888999999999998763  45555555555554311111 1111111111         33334333332 


Q ss_pred             ---cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc---
Q 045379          132 ---KSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCM----SGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK---  201 (352)
Q Consensus       132 ---~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~---  201 (352)
                         ..+.+.|...++...+.|.   ......+...+..    ......+...+......+   +...+..+...|..   
T Consensus        84 ~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~L~~~~~~~~~  157 (265)
T d1ouva_          84 QGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRG  157 (265)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSS
T ss_pred             cccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhccc---ccchhhhhhhhhccCCC
Confidence               4677788888888777653   2222333333332    334566666666665543   45666667777765   


Q ss_pred             -CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----c
Q 045379          202 -GGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGK----ASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR----E  272 (352)
Q Consensus       202 -~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~----~  272 (352)
                       ..+...+...++...+.|   +..+...+-..|..    ..+.++|+..|+...+.|   ++..+..|-..|.+    .
T Consensus       158 ~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~  231 (265)
T d1ouva_         158 TPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVT  231 (265)
T ss_dssp             SCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSS
T ss_pred             cccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCc
Confidence             455677777777777654   55666666555554    567889999998888776   45566667666665    4


Q ss_pred             CCHHHHHHHHHHHHHCCCCC
Q 045379          273 GLCEEAEEIFEQLQGAGIEP  292 (352)
Q Consensus       273 g~~~~a~~l~~~m~~~~~~p  292 (352)
                      .+.++|.+.|++..+.|..+
T Consensus       232 ~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         232 RNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             CCSTTHHHHHHHHHHHTCHH
T ss_pred             cCHHHHHHHHHHHHHCcCHH
Confidence            47888999998888777543

>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=97.28  E-value=0.00024  Score=58.00  Aligned_cols=122  Identities=10%  Similarity=-0.018  Sum_probs=80.2

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHcCCCHHH
Q 045379          129 YGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPS-AVVYNSYIDGLLKGGNPQK  207 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~  207 (352)
                      ..+.|++++|+..+++..+..+ -|...+..+...++..|++++|.+.++...+..  |+ ...+..+...+...+..++
T Consensus         6 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           6 ALSEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhccccHH
Confidence            4567999999999999998764 378899999999999999999999999998753  33 3444444333332222222


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          208 AVEIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       208 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      +..-...-...+-+++...+......+...|+.++|.+++++..+.
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            2111111111111223344445566677888888888888887653

>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=97.13  E-value=0.034  Score=46.40  Aligned_cols=170  Identities=12%  Similarity=-0.008  Sum_probs=111.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHhcCCCCchhhHHHHHHHHHHHhhccCcchhhHHhHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 045379           67 QQILRFVQREVDSNTIWDAFDSLPPTHATWDDLINVSVQLRLNKKWDPIVLMSCVSILLIEAYGQKSLHKKAEFTYLELL  146 (352)
Q Consensus        67 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~  146 (352)
                      ..+.+.|.+.|.++.|..++..+.                              -|..++..+.+.++++.|.+++... 
T Consensus        18 ~~i~~~c~~~~lye~A~~lY~~~~------------------------------d~~rl~~~~v~l~~~~~avd~~~k~-   66 (336)
T d1b89a_          18 QQVGDRCYDEKMYDAAKLLYNNVS------------------------------NFGRLASTLVHLGEYQAAVDGARKA-   66 (336)
T ss_dssp             -----------CTTTHHHHHHHTT------------------------------CHHHHHHHHHTTTCHHHHHHHHHHH-
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhCC------------------------------CHHHHHHHHHhhccHHHHHHHHHHc-
Confidence            455566666666666666665543                              5677888889999999998888654 


Q ss_pred             hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHH
Q 045379          147 DSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCCQPSTET  226 (352)
Q Consensus       147 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  226 (352)
                           -+..+|..+...|.+......+     ++..............++..|-..|.+++...+++..... -.++...
T Consensus        67 -----~~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~  135 (336)
T d1b89a_          67 -----NSTRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGM  135 (336)
T ss_dssp             -----TCHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHH
T ss_pred             -----CCHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHH
Confidence                 3677999999999988777554     3334445566677788999999999999999999987643 2567888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH----------HHHHHHHHHHhcCCHHHHHHHH
Q 045379          227 YTLMINLYGKASKSFMALKLFNEMRSHKCKPNIC----------TYTALVNAFAREGLCEEAEEIF  282 (352)
Q Consensus       227 ~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~----------t~~~li~~~~~~g~~~~a~~l~  282 (352)
                      ++-++..|++.+. ++..+.+...   +-..|..          -|.-++..|.+.|++++|..+.
T Consensus       136 ~~~L~~lyak~~~-~kl~e~l~~~---s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~  197 (336)
T d1b89a_         136 FTELAILYSKFKP-QKMREHLELF---WSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM  197 (336)
T ss_dssp             HHHHHHHHHTTCH-HHHHHHHHHH---STTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhCh-HHHHHHHHhc---cccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH
Confidence            9999999998753 3433333332   1122221          1456666677777777665443

>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=97.07  E-value=0.0056  Score=45.10  Aligned_cols=96  Identities=15%  Similarity=0.015  Sum_probs=53.0

Q ss_pred             HHHHH--HHHHHccCCHHHHHHHHHHHHhCCCC-CC----------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----
Q 045379          121 VSILL--IEAYGQKSLHKKAEFTYLELLDSRCI-PT----------EDTYALLLKAYCMSGLLEKAEAVFREMRKY----  183 (352)
Q Consensus       121 ~~~~l--i~~~~~~g~~~~a~~l~~~m~~~~~~-p~----------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----  183 (352)
                      +|..+  ...+.+.|++++|++.|.+..+.... |+          ...|+.+..+|...|++++|..-+++..+.    
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  34556678888888888877742111 11          345666666777777777776666665431    


Q ss_pred             -CCCCC-----HHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 045379          184 -GLPPS-----AVVYNSYIDGLLKGGNPQKAVEIFQRMK  216 (352)
Q Consensus       184 -g~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~  216 (352)
                       ...++     ...++.+-.+|...|++++|...|++..
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence             11111     1234444555555555555555555543

>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=97.01  E-value=0.0024  Score=46.60  Aligned_cols=126  Identities=12%  Similarity=0.064  Sum_probs=67.3

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHH
Q 045379          129 YGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKA  208 (352)
Q Consensus       129 ~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a  208 (352)
                      |-+.+.+++|.+.|+...+..+ -++.++..+-.++...+++..+.+-                         .+.+++|
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P-~~~~~~~~~g~~l~~~~~~~~~~e~-------------------------~~~~~~A   60 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFHSISDA-------------------------KQMIQEA   60 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHSCHHHH-------------------------HHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCC-cchHHHHHHHHHHHHhhhhhhhhHH-------------------------HHHHHHH
Confidence            4455666677777776665442 2455666666666544433222221                         1223456


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-----------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 045379          209 VEIFQRMKRDCCQPSTETYTLMINLYGKAS-----------KSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEE  277 (352)
Q Consensus       209 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-----------~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~  277 (352)
                      ...|++..+.. +.+..+|..+-.+|...|           .+++|.+.|+...+.  .|+...|..-+..+      .+
T Consensus        61 i~~~~kAl~l~-P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~------~k  131 (145)
T d1zu2a1          61 ITKFEEALLID-PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT------AK  131 (145)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH------HT
T ss_pred             HHHHHHHHHhc-chhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHH------HH
Confidence            66666555542 234556666655555443           246677777766654  46655555444443      45


Q ss_pred             HHHHHHHHHHCC
Q 045379          278 AEEIFEQLQGAG  289 (352)
Q Consensus       278 a~~l~~~m~~~~  289 (352)
                      |.+++.+..+.|
T Consensus       132 a~~~~~e~~k~~  143 (145)
T d1zu2a1         132 APQLHAEAYKQG  143 (145)
T ss_dssp             HHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHh
Confidence            556666665554

>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=97.00  E-value=0.0084  Score=44.08  Aligned_cols=63  Identities=13%  Similarity=-0.031  Sum_probs=42.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 045379          225 ETYTLMINLYGKASKSFMALKLFNEMRSH-----KCKPN-----ICTYTALVNAFAREGLCEEAEEIFEQLQG  287 (352)
Q Consensus       225 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~-----g~~p~-----~~t~~~li~~~~~~g~~~~a~~l~~~m~~  287 (352)
                      .+|+.+..+|...|++++|.+.+++....     ...++     ...++.+-.+|...|++++|...|++..+
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            45667777777777777777776665431     11222     12466777888888899888888888653

>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=96.97  E-value=0.0025  Score=46.52  Aligned_cols=47  Identities=11%  Similarity=-0.087  Sum_probs=27.8

Q ss_pred             HHHHHHHHHHcc----------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 045379          121 VSILLIEAYGQK----------SLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSG  168 (352)
Q Consensus       121 ~~~~li~~~~~~----------g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g  168 (352)
                      ++..+..++...          +.+++|+..|++..+..+ -+..+|..+..+|...|
T Consensus        33 ~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P-~~~~a~~~lG~~y~~~g   89 (145)
T d1zu2a1          33 NLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP-KKDEAVWCIGNAYTSFA   89 (145)
T ss_dssp             HHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcc-hhhHHHhhHHHHHHHcc
Confidence            677777777644          344566666666665432 24556666666665544

>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=96.55  E-value=0.018  Score=38.21  Aligned_cols=66  Identities=12%  Similarity=0.005  Sum_probs=37.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----CCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKY-----GLPP-SAVVYNSYIDGLLKGGNPQKAVEIFQRMKRD  218 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  218 (352)
                      +...+-.+-..+.+.|++++|...|++..+.     ...+ ...+++.+..+|.+.|++++|...+++.++.
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3344445556666666666666666655432     0111 1345666666666666666666666666654

>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=96.24  E-value=0.015  Score=51.64  Aligned_cols=200  Identities=11%  Similarity=-0.058  Sum_probs=100.2

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHH--HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHH
Q 045379          136 KKAEFTYLELLDSRCIPTEDTYALLLKAY--CMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQ  213 (352)
Q Consensus       136 ~~a~~l~~~m~~~~~~p~~~~~~~li~~~--~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~  213 (352)
                      ..+.+.++...+....++..-....+..+  ...+.++.+...+....+.. +++...+..+-..+.+.|+.++|...++
T Consensus        66 ~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~  144 (497)
T d1ya0a1          66 KNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQS  144 (497)
T ss_dssp             HHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CC
T ss_pred             HHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHH
Confidence            44555666555443333332222222111  12233444443333322221 2345566777777888888888888777


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 045379          214 RMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAGIEPD  293 (352)
Q Consensus       214 ~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~  293 (352)
                      ...+..   ...++..+-..+...|++++|+..|++..+.. +-+..+|+.+...+...|+..+|...|.+..... .|-
T Consensus       145 ~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~  219 (497)
T d1ya0a1         145 SSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPF  219 (497)
T ss_dssp             HHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCC
T ss_pred             HHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCC
Confidence            665431   23567778888899999999999999887752 3345789999999999999999999999887654 466


Q ss_pred             HHHHHHHHHHHHHHHHH-hc-CCCCC----HHHHHHHHHHHHHcCCcchhHHHH
Q 045379          294 VYAYNALMEAYRLISRM-HM-GCEPD----RASYNIMVDAYGRAGLHEGKCSYS  341 (352)
Q Consensus       294 ~~~~~~li~a~~~~~~m-~~-~~~p~----~~~~~~li~a~~~~g~~~~A~~~~  341 (352)
                      ..++..|...+.-...- .. ...+.    ...|..+...+...+..++..++.
T Consensus       220 ~~a~~nL~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~l~~~~~~~~~~~~~  273 (497)
T d1ya0a1         220 PAASTNLQKALSKALESRDEVKTKWGVSDFIKAFIKFHGHVYLSKSLEKLSPLR  273 (497)
T ss_dssp             HHHHHHHHHHHHHHTTSCCCCCSSCCHHHHHHHHHHHHHHHHHTCCGGGHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhhhhhccccccchHHHHHHHHHHHHHhCCchhhHHHHH
Confidence            77777777666422211 11 11111    223455555566677777666554

>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=96.15  E-value=0.21  Score=39.35  Aligned_cols=203  Identities=10%  Similarity=-0.025  Sum_probs=112.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 045379          122 SILLIEAYGQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCM----SGLLEKAEAVFREMRKYGLPPSAVVYNSYID  197 (352)
Q Consensus       122 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  197 (352)
                      +..|...+.+.|++++|.+.|++..+.|   +...+..|-..|..    ..+...|...+....+.+.   ......+..
T Consensus         5 ~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~~l~~   78 (265)
T d1ouva_           5 LVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCHLLGN   78 (265)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhhcccc
Confidence            3445556667788888888888887765   55566666666665    5577888888887777663   233333333


Q ss_pred             HHHc----CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH----hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 045379          198 GLLK----GGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYG----KASKSFMALKLFNEMRSHKCKPNICTYTALVNAF  269 (352)
Q Consensus       198 ~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~----~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~  269 (352)
                      .+..    ..+.+.|...+++..+.|.   ......+...+.    .......+...+......   .+...+..+...|
T Consensus        79 ~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~  152 (265)
T d1ouva_          79 LYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLY  152 (265)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             ccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhh
Confidence            3332    4567778888877776652   222223322222    233455566666655543   3445555555555


Q ss_pred             Hh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH--------------HHHHHHHH-hcCCCCCHHHHHHHHHHHHH
Q 045379          270 AR----EGLCEEAEEIFEQLQGAGIEPDVYAYNALME--------------AYRLISRM-HMGCEPDRASYNIMVDAYGR  330 (352)
Q Consensus       270 ~~----~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~--------------a~~~~~~m-~~~~~p~~~~~~~li~a~~~  330 (352)
                      ..    ..+...+...++...+.|   +......+-.              +...|+.. +.|   +...+..|...|.+
T Consensus       153 ~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~  226 (265)
T d1ouva_         153 DAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYN  226 (265)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHT
T ss_pred             ccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHc
Confidence            54    345556666666555544   2222222211              12244444 333   45555666666654


Q ss_pred             ----cCCcchhHHHHH
Q 045379          331 ----AGLHEGKCSYSL  342 (352)
Q Consensus       331 ----~g~~~~A~~~~~  342 (352)
                          ..+.++|.++|.
T Consensus       227 G~g~~~n~~~A~~~~~  242 (265)
T d1ouva_         227 GEGVTRNEKQAIENFK  242 (265)
T ss_dssp             TSSSSCCSTTHHHHHH
T ss_pred             CCCCccCHHHHHHHHH
Confidence                337788888875

>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=96.13  E-value=0.019  Score=50.87  Aligned_cols=108  Identities=12%  Similarity=-0.014  Sum_probs=44.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 045379          122 SILLIEAYGQKSLHKKAEFTYLELLDSRCIPT-EDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLL  200 (352)
Q Consensus       122 ~~~li~~~~~~g~~~~a~~l~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  200 (352)
                      ++.+...+.+.|+.++|...+.....    ++ ..++..+...+...|++++|...|++..+.. +.+...|+.+...|.
T Consensus       123 ~~~lg~~~~~~~~~~~A~~~~~~al~----~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~  197 (497)
T d1ya0a1         123 SSQLGIISNKQTHTSAIVKPQSSSCS----YICQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILAS  197 (497)
T ss_dssp             --------------------CCHHHH----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHH
T ss_pred             HHHhHHHHHhCCCHHHHHHHHHHHhC----CCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            33344444444455555444443332    11 1244455555555555555555555555432 233455555555555


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 045379          201 KGGNPQKAVEIFQRMKRDCCQPSTETYTLMINLYG  235 (352)
Q Consensus       201 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  235 (352)
                      ..|+..+|...|.+..... +|-..++..|...+.
T Consensus       198 ~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         198 SKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALS  231 (497)
T ss_dssp             HTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHH
Confidence            5555555555555555433 344555555554443

>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=95.82  E-value=0.07  Score=35.13  Aligned_cols=63  Identities=6%  Similarity=-0.132  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHcC-----CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 045379          191 VYNSYIDGLLKGGNPQKAVEIFQRMKRDC-----CQPS-TETYTLMINLYGKASKSFMALKLFNEMRSH  253 (352)
Q Consensus       191 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----~~~~-~~~~~~li~~~~~~g~~~~a~~l~~~m~~~  253 (352)
                      .+-.+-..+.+.|++++|...|++..+..     ..++ ..+++.|..+|.+.|++++|++.+++..+.
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            33345555666666666666666554320     1111 345566666666666666666666666553

>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=95.72  E-value=0.19  Score=35.22  Aligned_cols=82  Identities=13%  Similarity=0.026  Sum_probs=46.7

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCC
Q 045379          203 GNPQKAVEIFQRMKRDCCQPSTETYTLMINLYGK----ASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAR----EGL  274 (352)
Q Consensus       203 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~----~g~  274 (352)
                      .+.++|...+++..+.|   +...+..|-..|..    ..+.++|.++|++..+.|   ++.....|-..|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCC
Confidence            45566666666665554   34444444444433    345667777777776655   33444445445544    346


Q ss_pred             HHHHHHHHHHHHHCCC
Q 045379          275 CEEAEEIFEQLQGAGI  290 (352)
Q Consensus       275 ~~~a~~l~~~m~~~~~  290 (352)
                      .++|.++|++..+.|.
T Consensus       111 ~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_         111 EKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHCCC
Confidence            7777777777766653

>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=95.52  E-value=0.21  Score=34.47  Aligned_cols=140  Identities=16%  Similarity=0.052  Sum_probs=78.7

Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHH
Q 045379          130 GQKSLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAV  209 (352)
Q Consensus       130 ~~~g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~  209 (352)
                      .-.|.+++..++..+...+   .+..-||-+|--....-+-+-..++++..-+.   .|.          ..++++....
T Consensus        13 ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~vv   76 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVV   76 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHH
T ss_pred             HHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHHHH
Confidence            3346666666666666543   24444555554444444444444444443221   111          1223333333


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 045379          210 EIFQRMKRDCCQPSTETYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLCEEAEEIFEQLQGAG  289 (352)
Q Consensus       210 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~l~~~m~~~~  289 (352)
                      ..+-.+-     .+..-++..+.....+|+-+.-.++..++.+. -+|++...-.+..+|-+.|...++-+++.+.-+.|
T Consensus        77 ~C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          77 ECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            2222221     13344566677777777777777777776553 36777777777788888888888888888777777


Q ss_pred             CC
Q 045379          290 IE  291 (352)
Q Consensus       290 ~~  291 (352)
                      ++
T Consensus       151 ~K  152 (161)
T d1wy6a1         151 EK  152 (161)
T ss_dssp             CH
T ss_pred             HH
Confidence            53

>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=94.25  E-value=0.53  Score=32.72  Aligned_cols=112  Identities=11%  Similarity=-0.084  Sum_probs=79.8

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCCHHHH
Q 045379          133 SLHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLK----GGNPQKA  208 (352)
Q Consensus       133 g~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a  208 (352)
                      .++++|.++|.+.-+.|..   ..+..+.  .....+.++|.+.+++..+.|.   ...+..|-..|..    ..+.++|
T Consensus         7 kd~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g~---~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELNS---GNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhcccc---hhhhhhHHHhhhhccccchhhHHH
Confidence            3678999999998887742   2223332  2345678999999999888874   4555556666654    4568999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCC
Q 045379          209 VEIFQRMKRDCCQPSTETYTLMINLYGK----ASKSFMALKLFNEMRSHKC  255 (352)
Q Consensus       209 ~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~l~~~m~~~g~  255 (352)
                      .+.|++..+.|   ++.....|-..|..    ..+.++|.++|+...+.|.
T Consensus        79 ~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            99999998876   45566666666655    4678899999998887763

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=90.88  E-value=1.2  Score=30.61  Aligned_cols=67  Identities=18%  Similarity=0.197  Sum_probs=40.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC
Q 045379          153 TEDTYALLLKAYCMSGLLEKAEAVFREMRKYGLPPSAVVYNSYIDGLLKGGNPQKAVEIFQRMKRDCC  220 (352)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  220 (352)
                      +...+...++....+|+-|+-.++++.+.+.+ .|++...-.+..+|.+.|...++-.++.+.-+.|+
T Consensus        85 ~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          85 LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            33445555666666666666666666655532 45555566666666666666666666666666654

>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=88.40  E-value=2.6  Score=28.72  Aligned_cols=47  Identities=13%  Similarity=0.127  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 045379          205 PQKAVEIFQRMKRDCCQPS-TETYTLMINLYGKASKSFMALKLFNEMRS  252 (352)
Q Consensus       205 ~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~l~~~m~~  252 (352)
                      +++++.+|++..+.+ +.+ ...+-.|--+|.+.|++++|.+.++.+.+
T Consensus        54 ~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          54 ERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            345555565555432 112 23444455555566666666666665554

>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=88.28  E-value=1.1  Score=29.06  Aligned_cols=32  Identities=6%  Similarity=0.094  Sum_probs=12.5

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 045379          219 CCQPSTETYTLMINLYGKASKSFMALKLFNEM  250 (352)
Q Consensus       219 ~~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m  250 (352)
                      ...|++....+.+.+|.+.+++..|.++|+-.
T Consensus        36 DlVPeP~Ii~aALrAcRRvND~alAVR~lE~v   67 (105)
T d1v54e_          36 DLVPEPKIIDAALRACRRLNDFASAVRILEVV   67 (105)
T ss_dssp             SBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            33333333333333333333333333333333

>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=85.37  E-value=4  Score=27.75  Aligned_cols=75  Identities=9%  Similarity=-0.057  Sum_probs=50.4

Q ss_pred             HHHHhC-CCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 045379          143 LELLDS-RCIPTEDTYALLLKAYCMSG---LLEKAEAVFREMRKYGLPPS-AVVYNSYIDGLLKGGNPQKAVEIFQRMKR  217 (352)
Q Consensus       143 ~~m~~~-~~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  217 (352)
                      ++.... +..|++.|--...-+..++.   +.+++..++++..+.+ +.+ ...+-.|.-+|.+.|++++|.+.++.+++
T Consensus        23 ~q~~~e~~~~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          23 QQVVSEGGPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHTTGGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            344433 24466666666666666654   4568888888887643 223 23445566678899999999999999888


Q ss_pred             c
Q 045379          218 D  218 (352)
Q Consensus       218 ~  218 (352)
                      .
T Consensus       102 i  102 (124)
T d2pqrb1         102 H  102 (124)
T ss_dssp             H
T ss_pred             c
Confidence            6

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=84.82  E-value=3.5  Score=26.66  Aligned_cols=50  Identities=10%  Similarity=0.006  Sum_probs=34.5

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 045379          134 LHKKAEFTYLELLDSRCIPTEDTYALLLKAYCMSGLLEKAEAVFREMRKY  183 (352)
Q Consensus       134 ~~~~a~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  183 (352)
                      +.=++.+-++.+......|++......+.+|-+.+++..|..+++-.+.+
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            44456666666666667777777777777777777777777777766543

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.56  E-value=5.5  Score=27.20  Aligned_cols=111  Identities=12%  Similarity=0.121  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH--HHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 045379          226 TYTLMINLYGKASKSFMALKLFNEMRSHKCKPNICTYTALVNAFAREGLC--EEAEEIFEQLQGAGIEPDVYAYNALMEA  303 (352)
Q Consensus       226 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p~~~t~~~li~~~~~~g~~--~~a~~l~~~m~~~~~~p~~~~~~~li~a  303 (352)
                      ....++.-|...|+.++|...++++..... -....+..+..+.-+.+.-  +.+..++..+...|+-+....-..+...
T Consensus         9 k~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~-~~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is~~~i~~Gf~~~   87 (129)
T d2nsza1           9 EIDMLLKEYLLSGDISEAEHCLKELEVPHF-HHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYERI   87 (129)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTCGGG-HHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCchh-hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Confidence            467888899999999999999998853211 1234555566666565554  3467799999988876665555555555


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHHcCCcchh
Q 045379          304 YRLISRMHMGCEPDRASYNIMVDAYGRAGLHEGK  337 (352)
Q Consensus       304 ~~~~~~m~~~~~p~~~~~~~li~a~~~~g~~~~A  337 (352)
                      +..+..+.-.++--......++.-+...|-+...
T Consensus        88 l~~l~Dl~lDvP~a~~~l~~fi~rav~d~~l~~~  121 (129)
T d2nsza1          88 YNEIPDINLDVPHSYSVLERFVEECFQAGIISKQ  121 (129)
T ss_dssp             HHHHHHHHHHSTTHHHHHHHHHHHHHHTTCSCHH
T ss_pred             HhhCcHHhhccccHHHHHHHHHHHHHHcCCCCHH
Confidence            5555555333333344455566667777766543