Citrus Sinensis ID: 047934

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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----
Protein Sequence
MRSSQGGIFIKLITNWKLHQSHPISISSALLRRFCSIRDFNTKNCDNDNRNDQNPPEPIPDRPLRGERPFTNQNQNRRSFQPRFNNYQQQQRPQQQSFQSPNGPRPKSPDGVQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQKPF
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHHccccccccHHHHHHHHHccccccccccccccccccccccccccHHccccccccccccHHHHHHHHHHHHHcccccccEEEHHHHcccccccccccHHHHHHHHHHHHccccccccccHHHHHHHHHccccccccccccHHHHHHHHHHHHHccccccHHHHHccccccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHcccccccHHHHHHHHcHHHcccc
Secondary Structure Prediction (SSPRO)
ccccccEEEEEHccccccccccHHHHHHHHHHcccccccHcHHHHHHHccccccHHHHHHHHHHHcccHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHEHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
mrssqggiFIKLITnwklhqshpisiSSALLRRFCsirdfntkncdndnrndqnppepipdrplrgerpftnqnqnrrsfqprfnnyqqqqrpqqqsfqspngprpkspdgvqsdenFLDQFKLAidkkpgnpqqneslgqrqeqkpnrnepiseppqEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLmrekgtipeVVIYTAVVDGFCKAQKFDDAKRIFRKMqsngiapnafsYNLLIQGLYKCNKLEEAVEYCIEMLeaghspnvttFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFldkkapfsssVWEAIFgkktlqkpf
Flexible Loop (DISEMBL)
MRSSQGGIFIKLitnwklhqsHPISISSALLRRFCSIRDfntkncdndnrndqnppepipdrplrgerPFTNQNQNRRSFQPRFNNYQQQQRPQQQSFQSPNGPRPKSPDGVQSDENFLDQFKLAIDKKPGNPQQNeslgqrqeqkpnrnepiseppQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQsngiapnaFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSViatlkekgflvnDKAVREFldkkapfsssvweaifgkktlqkpf
Low Complexity Region (SEG)
MRSSQGGIFIKLITNWKLHQSHPISISSALLRRFCSIRDFNTKNCDNDNRNDQNPPEPIPDRPLRGERPFTNQNQNRRSfqprfnnyqqqqrpqqqsfqspnGPRPKSPDGVQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQKPF
Disordered region (IsUnstruct)
******GIFIKLITNWKLHQSHPISISSALLRRFCSIRDFNT******************************************************************************************************************************ETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFG********
Disordered Region (DISOPRED)
******G****LITN***********SSALLRRFCSIRDFNTKNCD******QNPPEPIPDRPLRGERPFTNQNQNRRSFQPRFNNYQQQQRPQQQSFQSPNGPRPKSPDGVQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQKPF
Disordered Region (DISEMBL)
MRSSQGGIFIKLITNWKLHQSHPISISSALLRRFCSIRDFNTKNCDNDNRNDQNPPEPIPDRPLRGERPFTNQNQNRRSFQPRFN***************************QSDENFLDQFKLAIDKKPGN************************PQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQKPF
Disordered Region (DISPRO)
**SSQGGIFIKLITNWKLHQSHPISISSALLRRFCSIRDFNTKNCDNDNRNDQNPPEPIPDRPLRGERPFTNQNQNRRSFQPRFNNYQQQQRPQQQSFQSPNGPRPKSPDGVQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQK**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRSSQGGIFIKLITNWKLHQSHPISISSALLRRFCSIRDFNTKNCDNDNRNDQNPPEPIPDRPLRGERPFTNQNQNRRSFQPRFNNYQQQQRPQQQSFQSPNGPRPKSPDGVQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQKPF
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	344	2.2.26 [Sep-21-2011]
Q9SZL5	302	Pentatricopeptide repeat-	yes	no	0.755	0.860	0.602	2e-92
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.412	0.229	0.365	1e-23
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.438	0.203	0.337	6e-23
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.433	0.231	0.328	1e-22
Q9FIT7	974	Pentatricopeptide repeat-	no	no	0.436	0.154	0.366	2e-22
Q9ASZ8	621	Pentatricopeptide repeat-	no	no	0.433	0.239	0.368	2e-22
Q9T0D6	566	Pentatricopeptide repeat-	no	no	0.427	0.259	0.34	2e-22
Q0WPZ6	874	Pentatricopeptide repeat-	no	no	0.436	0.171	0.326	5e-22
Q9FLJ4	654	Pentatricopeptide repeat-	no	no	0.430	0.226	0.370	7e-22
Q0WKV3	637	Pentatricopeptide repeat-	no	no	0.433	0.233	0.348	1e-21

>sp|Q9SZL5|PP356_ARATH Pentatricopeptide repeat-containing protein At4g38150 OS=Arabidopsis thaliana GN=At4g38150 PE=2 SV=1

 Score =  339 bits (869), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 176/292 (60%), Positives = 211/292 (72%), Gaps = 32/292 (10%)

Query: 53  QNPPEPIPDRPLRGERPFTNQNQNRRSFQPRFNNYQQQQRPQQQSFQSPNGPRPKSPDGV 112
           QNPPEP+P+RPLRGER   + N +R     + +N  +                    D  
Sbjct: 43  QNPPEPLPNRPLRGER---SSNSHREPPARQAHNLGKS-------------------DTT 80

Query: 113 QSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGL 172
            SD+ FL+QFKL ++       Q+     + EQ P   EP+  PP+++DEIFKKMKE GL
Sbjct: 81  LSDDGFLEQFKLGVN-------QDSRETPKPEQYPQ--EPLP-PPEDSDEIFKKMKEGGL 130

Query: 173 IPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFR 232
           IPNAVAMLDGLCKDGL+QEAMKLFGLMR+KGTIPEVVIYTAVV+ FCKA K +DAKRIFR
Sbjct: 131 IPNAVAMLDGLCKDGLVQEAMKLFGLMRDKGTIPEVVIYTAVVEAFCKAHKIEDAKRIFR 190

Query: 233 KMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRER 292
           KMQ+NGIAPNAFSY +L+QGLY CN L++AV +C EMLE+GHSPNV TFV LVD LCR +
Sbjct: 191 KMQNNGIAPNAFSYGVLVQGLYNCNMLDDAVAFCSEMLESGHSPNVPTFVELVDALCRVK 250

Query: 293 GVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQKPF 344
           GVE+AQS I TL +KGF VN KAV+EF+DK+APF S  WEAIF KK  +KPF
Sbjct: 251 GVEQAQSAIDTLNQKGFAVNVKAVKEFMDKRAPFPSLAWEAIFKKKPTEKPF 302

Arabidopsis thaliana (taxid: 3702)

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

 Score =  110 bits (276), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 53/145 (36%), Positives = 88/145 (60%), Gaps = 3/145 (2%)

Query: 159 EADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVV 215
           EA E++ +M   G+ P+ +   +++DG CK+  + EA ++F LM  KG  P++V Y+ ++
Sbjct: 333 EAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILI 392

Query: 216 DGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS 275
           + +CKA++ DD  R+FR++ S G+ PN  +YN L+ G  +  KL  A E   EM+  G  
Sbjct: 393 NSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVP 452

Query: 276 PNVTTFVGLVDGLCRERGVEKAQSV 300
           P+V T+  L+DGLC    + KA  +
Sbjct: 453 PSVVTYGILLDGLCDNGELNKALEI 477

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WVK7|PPR12_ARATH Pentatricopeptide repeat-containing protein At1g05670, mitochondrial OS=Arabidopsis thaliana GN=At1g05670 PE=2 SV=1

 Score =  108 bits (270), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 52/154 (33%), Positives = 89/154 (57%), Gaps = 3/154 (1%)

Query: 159 EADEIFKKMKETGLIPNAVA---MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVV 215
           EA+E F +M   G++P+ V    ++DG CK G I+ A K F  M  +   P+V+ YTA++
Sbjct: 334 EAEEAFSEMIRQGILPDTVVYTTLIDGFCKRGDIRAASKFFYEMHSRDITPDVLTYTAII 393

Query: 216 DGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS 275
            GFC+     +A ++F +M   G+ P++ ++  LI G  K   +++A      M++AG S
Sbjct: 394 SGFCQIGDMVEAGKLFHEMFCKGLEPDSVTFTELINGYCKAGHMKDAFRVHNHMIQAGCS 453

Query: 276 PNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGF 309
           PNV T+  L+DGLC+E  ++ A  ++  + + G 
Sbjct: 454 PNVVTYTTLIDGLCKEGDLDSANELLHEMWKIGL 487

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LPX2|PPR39_ARATH Pentatricopeptide repeat-containing protein At1g12775, mitochondrial OS=Arabidopsis thaliana GN=At1g12775 PE=2 SV=1

 Score =  107 bits (268), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 50/152 (32%), Positives = 93/152 (61%), Gaps = 3/152 (1%)

Query: 158 QEADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAV 214
           +EAD++ K+M + G+ PN +   +++DG CK+  ++EA+++  LM  KG  P+++ +  +
Sbjct: 350 READQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNIL 409

Query: 215 VDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH 274
           ++G+CKA + DD   +FR+M   G+  N  +YN L+QG  +  KLE A +   EM+    
Sbjct: 410 INGYCKANRIDDGLELFREMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRV 469

Query: 275 SPNVTTFVGLVDGLCRERGVEKAQSVIATLKE 306
            P++ ++  L+DGLC    +EKA  +   +++
Sbjct: 470 RPDIVSYKILLDGLCDNGELEKALEIFGKIEK 501

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIT7|PP442_ARATH Pentatricopeptide repeat-containing protein At5g61990, mitochondrial OS=Arabidopsis thaliana GN=At5g61990 PE=2 SV=1

 Score =  107 bits (266), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 56/153 (36%), Positives = 90/153 (58%), Gaps = 3/153 (1%)

Query: 160 ADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVD 216
           AD+  K+M+E G++PN V    +++  CK G + EA   +  M ++G + +   YT +++
Sbjct: 541 ADKYVKEMRECGVLPNKVLCTGLINEYCKKGKVIEACSAYRSMVDQGILGDAKTYTVLMN 600

Query: 217 GFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP 276
           G  K  K DDA+ IFR+M+  GIAP+ FSY +LI G  K   +++A     EM+E G +P
Sbjct: 601 GLFKNDKVDDAEEIFREMRGKGIAPDVFSYGVLINGFSKLGNMQKASSIFDEMVEEGLTP 660

Query: 277 NVTTFVGLVDGLCRERGVEKAQSVIATLKEKGF 309
           NV  +  L+ G CR   +EKA+ ++  +  KG 
Sbjct: 661 NVIIYNMLLGGFCRSGEIEKAKELLDEMSVKGL 693

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ASZ8|PPR37_ARATH Pentatricopeptide repeat-containing protein At1g12620 OS=Arabidopsis thaliana GN=At1g12620 PE=2 SV=1

 Score =  107 bits (266), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 56/152 (36%), Positives = 88/152 (57%), Gaps = 3/152 (1%)

Query: 160 ADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVD 216
           A E+ +KM+E  +  +AV    ++DGLCKDG +  A  LF  M  KG   +++IYT ++ 
Sbjct: 231 AMELLRKMEERKIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIIIYTTLIR 290

Query: 217 GFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP 276
           GFC A ++DD  ++ R M    I P+  +++ LI    K  KL EA E   EM++ G SP
Sbjct: 291 GFCYAGRWDDGAKLLRDMIKRKITPDVVAFSALIDCFVKEGKLREAEELHKEMIQRGISP 350

Query: 277 NVTTFVGLVDGLCRERGVEKAQSVIATLKEKG 308
           +  T+  L+DG C+E  ++KA  ++  +  KG
Sbjct: 351 DTVTYTSLIDGFCKENQLDKANHMLDLMVSKG 382

Arabidopsis thaliana (taxid: 3702)

>sp|Q9T0D6|PP306_ARATH Pentatricopeptide repeat-containing protein At4g11690 OS=Arabidopsis thaliana GN=At4g11690 PE=2 SV=1

 Score =  106 bits (265), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 89/150 (59%), Gaps = 3/150 (2%)

Query: 162 EIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGF 218
           E+++KM+E G+ PN      +++ LCKDG  ++A ++F  MRE+G    +V Y  ++ G 
Sbjct: 254 EMYEKMQEDGVFPNLYTYNCVMNQLCKDGRTKDAFQVFDEMRERGVSCNIVTYNTLIGGL 313

Query: 219 CKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNV 278
           C+  K ++A ++  +M+S+GI PN  +YN LI G     KL +A+  C ++   G SP++
Sbjct: 314 CREMKLNEANKVVDQMKSDGINPNLITYNTLIDGFCGVGKLGKALSLCRDLKSRGLSPSL 373

Query: 279 TTFVGLVDGLCRERGVEKAQSVIATLKEKG 308
            T+  LV G CR+     A  ++  ++E+G
Sbjct: 374 VTYNILVSGFCRKGDTSGAAKMVKEMEERG 403

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WPZ6|PP158_ARATH Pentatricopeptide repeat-containing protein At2g17140 OS=Arabidopsis thaliana GN=At2g17140 PE=2 SV=1

 Score =  105 bits (262), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 50/153 (32%), Positives = 88/153 (57%), Gaps = 3/153 (1%)

Query: 159 EADEIFKKMKETGLIPNAVA---MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVV 215
           EA+ + K+M + G+ P+  +   ++DGLCK G++ +A  + GLM+  G  P+ V Y  ++
Sbjct: 344 EAETVLKQMTDKGIGPSIYSYNILMDGLCKLGMLSDAKTIVGLMKRNGVCPDAVTYGCLL 403

Query: 216 DGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS 275
            G+C   K D AK + ++M  N   PNA++ N+L+  L+K  ++ EA E   +M E G+ 
Sbjct: 404 HGYCSVGKVDAAKSLLQEMMRNNCLPNAYTCNILLHSLWKMGRISEAEELLRKMNEKGYG 463

Query: 276 PNVTTFVGLVDGLCRERGVEKAQSVIATLKEKG 308
            +  T   +VDGLC    ++KA  ++  ++  G
Sbjct: 464 LDTVTCNIIVDGLCGSGELDKAIEIVKGMRVHG 496

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLJ4|PP440_ARATH Pentatricopeptide repeat-containing protein At5g61400 OS=Arabidopsis thaliana GN=At5g61400 PE=2 SV=1

 Score =  105 bits (261), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 56/151 (37%), Positives = 88/151 (58%), Gaps = 3/151 (1%)

Query: 158 QEADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAV 214
           +EA+++F+ MK+ G++PN     AM+DG CK G +++A  L+  +     +P VV++  +
Sbjct: 251 EEAEKMFELMKKHGVLPNLYTYSAMIDGYCKTGNVRQAYGLYKEILVAELLPNVVVFGTL 310

Query: 215 VDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH 274
           VDGFCKA++   A+ +F  M   G+ PN + YN LI G  K   + EAV    EM     
Sbjct: 311 VDGFCKARELVTARSLFVHMVKFGVDPNLYVYNCLIHGHCKSGNMLEAVGLLSEMESLNL 370

Query: 275 SPNVTTFVGLVDGLCRERGVEKAQSVIATLK 305
           SP+V T+  L++GLC E  V +A  +   +K
Sbjct: 371 SPDVFTYTILINGLCIEDQVAEANRLFQKMK 401

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WKV3|PPR36_ARATH Pentatricopeptide repeat-containing protein At1g12300, mitochondrial OS=Arabidopsis thaliana GN=At1g12300 PE=2 SV=1

 Score =  103 bits (258), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 84/152 (55%), Gaps = 3/152 (1%)

Query: 160 ADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVD 216
           A E+ +KM+E  +  +AV    ++DGLCK G +  A  LF  M  KG    ++ Y  ++ 
Sbjct: 247 AMELLRKMEERNIKLDAVKYSIIIDGLCKHGSLDNAFNLFNEMEMKGITTNIITYNILIG 306

Query: 217 GFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP 276
           GFC A ++DD  ++ R M    I PN  ++++LI    K  KL EA E   EM+  G +P
Sbjct: 307 GFCNAGRWDDGAKLLRDMIKRKINPNVVTFSVLIDSFVKEGKLREAEELHKEMIHRGIAP 366

Query: 277 NVTTFVGLVDGLCRERGVEKAQSVIATLKEKG 308
           +  T+  L+DG C+E  ++KA  ++  +  KG
Sbjct: 367 DTITYTSLIDGFCKENHLDKANQMVDLMVSKG 398

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	344
356538160	388	PREDICTED: pentatricopeptide repeat-cont	0.857	0.760	0.600	2e-99
356495421	397	PREDICTED: pentatricopeptide repeat-cont	0.901	0.780	0.576	9e-98
224131960	347	predicted protein [Populus trichocarpa]	0.898	0.890	0.556	2e-97
388496610	372	unknown [Lotus japonicus]	0.813	0.752	0.589	8e-91
15233698	302	pentatricopeptide repeat-containing prot	0.755	0.860	0.602	1e-90
18700180	302	AT4g38150/F20D10_270 [Arabidopsis thalia	0.755	0.860	0.599	3e-90
297801902	301	pentatricopeptide repeat-containing prot	0.776	0.887	0.585	8e-90
255546664	313	pentatricopeptide repeat-containing prot	0.880	0.968	0.546	9e-90
147854551	381	hypothetical protein VITISV_020581 [Viti	0.697	0.629	0.641	1e-85
225428364	380	PREDICTED: pentatricopeptide repeat-cont	0.697	0.631	0.637	5e-85

>gi|356538160|ref|XP_003537572.1| PREDICTED: pentatricopeptide repeat-containing protein At4g38150-like [Glycine max]

 Score =  368 bits (945), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 191/318 (60%), Positives = 233/318 (73%), Gaps = 23/318 (7%)

Query: 47  NDNRNDQNPPEPIPDRPLRGERP-------FTNQNQNRRSFQPRFNNYQQQQRPQQQ--- 96
           ++  +DQ+  EPIP RPLR  +P       F   ++   SF PRF  Y     P +    
Sbjct: 74  DNGESDQSLSEPIPSRPLRSRKPVNQPPPRFQEYDRGSHSFPPRF--YDNHGGPDELDQT 131

Query: 97  --------SFQSPNGPRPKSPDGVQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQK-P 147
                   +FQ+ N  +    D  QS ++FL++FKL  D K  N  +  +  Q +E K  
Sbjct: 132 NKSSKIDLAFQNTNVAKTNR-DAGQSGDSFLNKFKLGFDDKTVNLSEVAASKQSEEAKRS 190

Query: 148 NRNEPISEP-PQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIP 206
           N N+P  E  PQ+ADEIFKKMKETGLIPNAVAMLDGLCKDGL+QEA+KLFGLMREKGTIP
Sbjct: 191 NPNQPAQESMPQDADEIFKKMKETGLIPNAVAMLDGLCKDGLVQEALKLFGLMREKGTIP 250

Query: 207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYC 266
           E+VIYTAVV+G+ KA K DDAKRIFRKMQS+G++PNAFSY +LIQGLYKC++L +A E+C
Sbjct: 251 EIVIYTAVVEGYTKAHKADDAKRIFRKMQSSGVSPNAFSYMVLIQGLYKCSRLHDAFEFC 310

Query: 267 IEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPF 326
           +EMLEAGHSPNVTTFVGLVDG C E+GVE+A+S I TL +KGF+VN+KAVR+FLDKKAPF
Sbjct: 311 VEMLEAGHSPNVTTFVGLVDGFCNEKGVEEAKSAIKTLTDKGFVVNEKAVRQFLDKKAPF 370

Query: 327 SSSVWEAIFGKKTLQKPF 344
           S SVWEAIFGKK  Q+PF
Sbjct: 371 SPSVWEAIFGKKAPQRPF 388

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356495421|ref|XP_003516576.1| PREDICTED: pentatricopeptide repeat-containing protein At4g38150-like [Glycine max]

 Score =  363 bits (931), Expect = 9e-98,   Method: Compositional matrix adjust.
 Identities = 189/328 (57%), Positives = 231/328 (70%), Gaps = 18/328 (5%)

Query: 35  CSIRDFNTKNCDNDNRNDQNPPEPIPDRPLRGERP-------FTNQNQNRRSFQPRFNNY 87
            S +D  +         +Q+  EPIP RPLRG++P       F   ++   SF PRF++ 
Sbjct: 70  SSFKDNGSNRTQESYNVEQSLSEPIPSRPLRGKKPINQPPPRFREYDRGSHSFPPRFDDN 129

Query: 88  Q---------QQQRPQQQSFQSPNGPRPKSPDGVQSDENFLDQFKLAIDKKPGNPQQNES 138
                      +      +FQ        + D  +S  +FLD+FKL  D K  N  +  +
Sbjct: 130 HGGPDELDKINKSSQIDLAFQGTTNVAETNRDVGKSGGSFLDKFKLGFDDKTVNLSEVAA 189

Query: 139 LGQRQEQK-PNRNEPISEP-PQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLF 196
             Q +E K  N N+P  E  PQ+A+EIFKKMKETGLIPNAVAMLDGLCKDGL+QEA+KLF
Sbjct: 190 SKQSEEAKRSNPNQPAQESMPQDANEIFKKMKETGLIPNAVAMLDGLCKDGLVQEALKLF 249

Query: 197 GLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC 256
           GL+REKGTIPE+VIYTAVV+G+ KA K DDAKRIFRKMQS+GI+PNAFSY +LIQGLYKC
Sbjct: 250 GLIREKGTIPEIVIYTAVVEGYTKAHKADDAKRIFRKMQSSGISPNAFSYTVLIQGLYKC 309

Query: 257 NKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAV 316
           N+L +A E+C+EMLEAGHSPNVT FVGLVDG C E+GVE+A+S I TL EKGF+VN+KAV
Sbjct: 310 NRLHDAFEFCVEMLEAGHSPNVTAFVGLVDGFCNEKGVEEAKSAIKTLTEKGFVVNEKAV 369

Query: 317 REFLDKKAPFSSSVWEAIFGKKTLQKPF 344
            +FLDKKAPFS SVWEAIFGKK  Q+PF
Sbjct: 370 GQFLDKKAPFSPSVWEAIFGKKAPQRPF 397

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224131960|ref|XP_002328150.1| predicted protein [Populus trichocarpa] gi|222837665|gb|EEE76030.1| predicted protein [Populus trichocarpa]

 Score =  362 bits (929), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 198/356 (55%), Positives = 235/356 (66%), Gaps = 47/356 (13%)

Query: 16  WKLHQSHPISISSALLRRFCSIRDFNTK----NCDNDNR---NDQNPPEPIPDRPLRGER 68
            KLH    IS+S  +LRRF S    +T     N D++      +QNPPEPIP+RPLRG +
Sbjct: 12  LKLHSHSRISLSQ-ILRRFSSSIKGSTAGAGFNFDDEKERRLQNQNPPEPIPNRPLRGPK 70

Query: 69  PFTNQNQNRRSFQPRFNNYQQQQRPQQQSFQSPNGPRPKSPDGVQ------SDENFLDQF 122
           P  N N NR +            RPQ     S   P    P          SD+ FLD+F
Sbjct: 71  PNFNNNTNRPA------------RPQPSHHPSTTSPFNLQPQTQTHDFNRISDDAFLDKF 118

Query: 123 KLAIDKKPGNPQQNESLGQRQEQKPN--------------RNEPISEPPQEADEIFKKMK 168
           KL       +P  N ++ +                      +   SEP Q+A++IF KMK
Sbjct: 119 KL-------HPDHNNNVNKDAAAADTKAAAAPPPPKNEQASSASTSEPSQDAEQIFNKMK 171

Query: 169 ETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK 228
           ETGLIPNAVAMLDGLCKDGL+QEA+KLFG MREKGTIPEVVIYTAVVDGFCKA K DDAK
Sbjct: 172 ETGLIPNAVAMLDGLCKDGLVQEALKLFGTMREKGTIPEVVIYTAVVDGFCKAHKLDDAK 231

Query: 229 RIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGL 288
           RIFRKMQSNGI PNAFSY +LIQGL KCN  ++A+++C EMLE GHSPNVTTFVGL+DGL
Sbjct: 232 RIFRKMQSNGITPNAFSYAVLIQGLSKCNLFDDAIDFCFEMLELGHSPNVTTFVGLIDGL 291

Query: 289 CRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQKPF 344
           CRE+GVE+A++VI TL++KGF V+DKAVR+FLDK  P SSSVW+AIFGKK   KPF
Sbjct: 292 CREKGVEEARTVIGTLRQKGFHVHDKAVRDFLDKNKPLSSSVWDAIFGKKPSHKPF 347

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388496610|gb|AFK36371.1| unknown [Lotus japonicus]

 Score =  340 bits (871), Expect = 8e-91,   Method: Compositional matrix adjust.
 Identities = 181/307 (58%), Positives = 221/307 (71%), Gaps = 27/307 (8%)

Query: 57  EPIPDRPLRGERPFT----NQNQNRRSFQPRFNNYQQQQRPQQ-----QSFQSPNGPRPK 107
           EPIP+R LRG +P        N+  RS +PRF+    + RP       +S Q+  G + +
Sbjct: 74  EPIPNRALRGTQPVNPHSREYNRGSRSSRPRFDG--NRGRPDDVEMTNKSSQTDIGFQGR 131

Query: 108 SPDGVQSDEN---------FLDQFKLAIDKKPGNPQQNESLGQRQEQK-PNRNEPISEPP 157
           +     SD N         FLD+FKL  D K GN  +  +    +E K  N N+P    P
Sbjct: 132 N----MSDTNKVVNKLGDSFLDKFKLGFDNKAGNSSEVAASNLSEEAKSANSNQPAM--P 185

Query: 158 QEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDG 217
           ++ADEIFKKMKETGLIPNAVAMLDGLCKDGL+QEA+KLFGLMREKGTIPE+VIYTAVV+G
Sbjct: 186 EDADEIFKKMKETGLIPNAVAMLDGLCKDGLVQEALKLFGLMREKGTIPEIVIYTAVVEG 245

Query: 218 FCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN 277
           + KA K DDAKRIFRKMQSNGI+PNAFSY +L+QGL KC++L++A E+C+EMLEAGHSPN
Sbjct: 246 YTKAHKADDAKRIFRKMQSNGISPNAFSYTVLVQGLCKCSRLQDAFEFCVEMLEAGHSPN 305

Query: 278 VTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGK 337
           +TTFV LVDG  +E+GV +A+  I TL EKGF+VN+KAV+ FLD K PFS SVWEAIFGK
Sbjct: 306 MTTFVDLVDGFVKEQGVAEAKGAIRTLIEKGFVVNEKAVKGFLDMKKPFSPSVWEAIFGK 365

Query: 338 KTLQKPF 344
           K  Q PF
Sbjct: 366 KAPQMPF 372

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15233698|ref|NP_195528.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|79326453|ref|NP_001031806.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75266764|sp|Q9SZL5.1|PP356_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g38150 gi|4467121|emb|CAB37555.1| putative protein [Arabidopsis thaliana] gi|7270799|emb|CAB80480.1| putative protein [Arabidopsis thaliana] gi|26453272|dbj|BAC43709.1| unknown protein [Arabidopsis thaliana] gi|332661484|gb|AEE86884.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|332661485|gb|AEE86885.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  339 bits (869), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 176/292 (60%), Positives = 211/292 (72%), Gaps = 32/292 (10%)

Query: 53  QNPPEPIPDRPLRGERPFTNQNQNRRSFQPRFNNYQQQQRPQQQSFQSPNGPRPKSPDGV 112
           QNPPEP+P+RPLRGER   + N +R     + +N  +                    D  
Sbjct: 43  QNPPEPLPNRPLRGER---SSNSHREPPARQAHNLGKS-------------------DTT 80

Query: 113 QSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGL 172
            SD+ FL+QFKL ++       Q+     + EQ P   EP+  PP+++DEIFKKMKE GL
Sbjct: 81  LSDDGFLEQFKLGVN-------QDSRETPKPEQYPQ--EPLP-PPEDSDEIFKKMKEGGL 130

Query: 173 IPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFR 232
           IPNAVAMLDGLCKDGL+QEAMKLFGLMR+KGTIPEVVIYTAVV+ FCKA K +DAKRIFR
Sbjct: 131 IPNAVAMLDGLCKDGLVQEAMKLFGLMRDKGTIPEVVIYTAVVEAFCKAHKIEDAKRIFR 190

Query: 233 KMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRER 292
           KMQ+NGIAPNAFSY +L+QGLY CN L++AV +C EMLE+GHSPNV TFV LVD LCR +
Sbjct: 191 KMQNNGIAPNAFSYGVLVQGLYNCNMLDDAVAFCSEMLESGHSPNVPTFVELVDALCRVK 250

Query: 293 GVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQKPF 344
           GVE+AQS I TL +KGF VN KAV+EF+DK+APF S  WEAIF KK  +KPF
Sbjct: 251 GVEQAQSAIDTLNQKGFAVNVKAVKEFMDKRAPFPSLAWEAIFKKKPTEKPF 302

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18700180|gb|AAL77701.1| AT4g38150/F20D10_270 [Arabidopsis thaliana] gi|23505863|gb|AAN28791.1| At4g38150/F20D10_270 [Arabidopsis thaliana]

 Score =  338 bits (866), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 175/292 (59%), Positives = 211/292 (72%), Gaps = 32/292 (10%)

Query: 53  QNPPEPIPDRPLRGERPFTNQNQNRRSFQPRFNNYQQQQRPQQQSFQSPNGPRPKSPDGV 112
           QNPPEP+P+RPLRGER   + N +R     + +N  +                    D  
Sbjct: 43  QNPPEPLPNRPLRGER---SSNSHREPPARQAHNLGKS-------------------DTT 80

Query: 113 QSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGL 172
            SD+ FL+QFKL ++       Q+     + EQ P   EP+  PP+++DEIFKKMKE GL
Sbjct: 81  LSDDGFLEQFKLGVN-------QDSRETPKPEQYPQ--EPLP-PPEDSDEIFKKMKEGGL 130

Query: 173 IPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFR 232
           IPNAVAMLDGLCKDGL+QEAMKLFGLMR+KGTIPEVVIYTAVV+ FCKA K +DAKRIFR
Sbjct: 131 IPNAVAMLDGLCKDGLVQEAMKLFGLMRDKGTIPEVVIYTAVVEAFCKAHKIEDAKRIFR 190

Query: 233 KMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRER 292
           KMQ+NGIAPNAFSY +L+QGLY CN L++AV +C +MLE+GHSPNV TFV LVD LCR +
Sbjct: 191 KMQNNGIAPNAFSYGVLVQGLYNCNMLDDAVAFCSDMLESGHSPNVPTFVELVDALCRVK 250

Query: 293 GVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQKPF 344
           GVE+AQS I TL +KGF VN KAV+EF+DK+APF S  WEAIF KK  +KPF
Sbjct: 251 GVEQAQSAIDTLNQKGFAVNVKAVKEFMDKRAPFPSLAWEAIFKKKPTEKPF 302

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297801902|ref|XP_002868835.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297314671|gb|EFH45094.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  336 bits (862), Expect = 8e-90,   Method: Compositional matrix adjust.
 Identities = 175/299 (58%), Positives = 212/299 (70%), Gaps = 32/299 (10%)

Query: 46  DNDNRNDQNPPEPIPDRPLRGERPFTNQNQNRRSFQPRFNNYQQQQRPQQQSFQSPNGPR 105
           D      QNPPEP+P+RPLRGER   + N +R             + P +Q+        
Sbjct: 35  DKGQEKQQNPPEPLPNRPLRGER---SSNSHR-------------EPPARQAHDL----- 73

Query: 106 PKSPDGVQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFK 165
               D   SD+ FL+QFKL ++       Q+     + EQ P   +P+  PP+++DEIFK
Sbjct: 74  -GKIDNTLSDDGFLEQFKLGVN-------QDSQETPKPEQYPQ--DPLL-PPEDSDEIFK 122

Query: 166 KMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFD 225
           KMKE GLIPNAVAMLDGLCKDGL+QEAMKLFGLMR+KGTIPEVVIYTAVV+GFCKA K +
Sbjct: 123 KMKEGGLIPNAVAMLDGLCKDGLVQEAMKLFGLMRDKGTIPEVVIYTAVVEGFCKAHKIE 182

Query: 226 DAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLV 285
           DAKRIFRKMQ+NGI PNAFSY +L+QGLY CN L++AV +C EMLE+GHSPN+ TFVGLV
Sbjct: 183 DAKRIFRKMQTNGITPNAFSYGVLVQGLYNCNMLDDAVTFCCEMLESGHSPNIPTFVGLV 242

Query: 286 DGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQKPF 344
           D LCRE+GVE+AQS I  L +KGF +N KAV+EF+DK+APF S  WEAIF KK   KP 
Sbjct: 243 DALCREKGVEQAQSAIDGLNQKGFALNVKAVKEFMDKRAPFPSLAWEAIFKKKPTDKPL 301

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255546664|ref|XP_002514391.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223546488|gb|EEF47987.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  336 bits (862), Expect = 9e-90,   Method: Compositional matrix adjust.
 Identities = 183/335 (54%), Positives = 232/335 (69%), Gaps = 32/335 (9%)

Query: 16  WKLHQSHPISISSALLRRFCSIRD----FNTKNCDNDNRN-DQNPPEPIPDRPLRGERPF 70
           WKL +  P S++  ++R F SIR+    F+     +D  N D +PP PIP+RPLRG+  F
Sbjct: 5   WKLMRMKPNSVTE-IVRCFSSIRETRGSFSLNGERDDASNVDNSPPHPIPNRPLRGQTSF 63

Query: 71  TNQNQNRRSFQPRFNNYQQQQRPQQQSFQSPNGPRPKSPDGVQSDENFLDQFKLAIDKKP 130
            NQ+Q+                      QSP  PR  +     S ++FL++FKL  +K+ 
Sbjct: 64  -NQSQS----------------------QSPRIPRRNTNQNHLSSDDFLEKFKL--NKRN 98

Query: 131 GNPQQNESLGQRQEQKPNRNEP-ISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLI 189
              +    +     +  N N+     PP +A++IF KMKETGLIPNAVAMLDGLCKDGL+
Sbjct: 99  HKDEIPHQINNHTSKDENINKSSPPPPPPDANDIFNKMKETGLIPNAVAMLDGLCKDGLV 158

Query: 190 QEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLL 249
           QEAMKLFGLMR+KGTIPEVV+YTAVVDGFCKA K DDAKRIF+KM  NGI PNAFSY + 
Sbjct: 159 QEAMKLFGLMRQKGTIPEVVVYTAVVDGFCKAHKTDDAKRIFKKMIDNGITPNAFSYTVT 218

Query: 250 IQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGF 309
           IQGL KCN +++AV++C +ML+AGHSPNVTTFVGLVDGLCRE+GV++AQ+VI  L++KGF
Sbjct: 219 IQGLCKCNAVDDAVDFCFQMLDAGHSPNVTTFVGLVDGLCREKGVDEAQNVIEDLRKKGF 278

Query: 310 LVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQKPF 344
            +N KA+REFLDK AP SS + +AIFGKK  Q PF
Sbjct: 279 YINGKAIREFLDKNAPLSSDLSQAIFGKKPSQMPF 313

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147854551|emb|CAN78573.1| hypothetical protein VITISV_020581 [Vitis vinifera]

 Score =  322 bits (826), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 156/243 (64%), Positives = 194/243 (79%), Gaps = 3/243 (1%)

Query: 102 NGPRPKSPDGVQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEAD 161
           N P P    G   ++ FL++FKL + KK   PQ++ +    +EQ  N  +   +PPQ AD
Sbjct: 142 NQPSPAEKVGATLEDGFLERFKLGVQKKE-RPQESAAAQPSREQDANHGK--EQPPQNAD 198

Query: 162 EIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKA 221
           EIF+KMKE+GLIPNAVAMLDGLCKDGL+QEAMKLFGLMREKGTIPEVVIYTAVV+GFCKA
Sbjct: 199 EIFRKMKESGLIPNAVAMLDGLCKDGLVQEAMKLFGLMREKGTIPEVVIYTAVVEGFCKA 258

Query: 222 QKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTF 281
           ++ DDA RIFRKMQ+NGI+PNAFSY +LI+G+YK N+L+ AV++C+EMLEAGHSPNV T 
Sbjct: 259 RQLDDAVRIFRKMQNNGISPNAFSYTVLIRGMYKGNRLDIAVDFCVEMLEAGHSPNVATL 318

Query: 282 VGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQ 341
           V L+   C+E+GVE+A++VI TLK+KG  V+DKAVRE+LDKK P S  VWEA FGKK+ Q
Sbjct: 319 VDLIHEFCKEKGVEEAKNVIVTLKQKGLFVDDKAVREYLDKKGPQSPLVWEAFFGKKSPQ 378

Query: 342 KPF 344
           + F
Sbjct: 379 RSF 381

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225428364|ref|XP_002283311.1| PREDICTED: pentatricopeptide repeat-containing protein At4g38150-like [Vitis vinifera]

 Score =  320 bits (821), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 155/243 (63%), Positives = 194/243 (79%), Gaps = 3/243 (1%)

Query: 102 NGPRPKSPDGVQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEAD 161
           N P P    G   ++ FL++FKL + KK   PQ++ +    +EQ  N  +   +PPQ AD
Sbjct: 141 NQPSPAEKVGATLEDGFLERFKLGVQKKE-RPQESAAAQPSREQDANHGK--EQPPQNAD 197

Query: 162 EIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKA 221
           EIF+KMKE+GLIPNAVAMLDGLCKDGL+QEAMKLFGLMREKGTIPEVVIYTAVV+GFCKA
Sbjct: 198 EIFRKMKESGLIPNAVAMLDGLCKDGLVQEAMKLFGLMREKGTIPEVVIYTAVVEGFCKA 257

Query: 222 QKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTF 281
           ++ +DA RIFRKMQ+NGI+PNAFSY +LI+G+YK N+L+ AV++C+EMLEAGHSPNV T 
Sbjct: 258 RQLNDAVRIFRKMQNNGISPNAFSYTVLIRGMYKGNRLDIAVDFCVEMLEAGHSPNVATL 317

Query: 282 VGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQ 341
           V L+   C+E+GVE+A++VI TLK+KG  V+DKAVRE+LDKK P S  VWEA FGKK+ Q
Sbjct: 318 VDLIHEFCKEKGVEEAKNVIVTLKQKGLFVDDKAVREYLDKKGPQSPLVWEAFFGKKSPQ 377

Query: 342 KPF 344
           + F
Sbjct: 378 RSF 380

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	344
TAIR|locus:2120983	302	AT4G38150 "AT4G38150" [Arabido	0.654	0.745	0.680	9.1e-88
TAIR|locus:2831869	363	AT5G03560 [Arabidopsis thalian	0.555	0.526	0.364	6.9e-31
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.430	0.239	0.350	4.2e-24
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.433	0.231	0.328	9.7e-24
TAIR|locus:2174008	974	AT5G61990 "AT5G61990" [Arabido	0.444	0.157	0.365	9.6e-23
TAIR|locus:2195047	621	AT1G12620 [Arabidopsis thalian	0.433	0.239	0.368	1.1e-22
TAIR|locus:2139732	566	AT4G11690 [Arabidopsis thalian	0.427	0.259	0.34	1.4e-22
TAIR|locus:2163041	527	AT5G41170 [Arabidopsis thalian	0.433	0.282	0.342	3.1e-22
TAIR|locus:2161408	472	AT5G46100 "AT5G46100" [Arabido	0.427	0.311	0.36	4.4e-22
TAIR|locus:2026207	548	AT1G62680 [Arabidopsis thalian	0.433	0.271	0.342	4.4e-22

TAIR|locus:2120983 AT4G38150 "AT4G38150" [Arabidopsis thaliana (taxid:3702)]

 Score = 810 (290.2 bits), Expect = 9.1e-88, Sum P(2) = 9.1e-88
 Identities = 160/235 (68%), Positives = 187/235 (79%)

Query:   110 DGVQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKE 169
             D   SD+ FL+QFKL +     N    E+   + EQ P   EP+  PP+++DEIFKKMKE
Sbjct:    78 DTTLSDDGFLEQFKLGV-----NQDSRET--PKPEQYPQ--EPLP-PPEDSDEIFKKMKE 127

Query:   170 TGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKR 229
              GLIPNAVAMLDGLCKDGL+QEAMKLFGLMR+KGTIPEVVIYTAVV+ FCKA K +DAKR
Sbjct:   128 GGLIPNAVAMLDGLCKDGLVQEAMKLFGLMRDKGTIPEVVIYTAVVEAFCKAHKIEDAKR 187

Query:   230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLC 289
             IFRKMQ+NGIAPNAFSY +L+QGLY CN L++AV +C EMLE+GHSPNV TFV LVD LC
Sbjct:   188 IFRKMQNNGIAPNAFSYGVLVQGLYNCNMLDDAVAFCSEMLESGHSPNVPTFVELVDALC 247

Query:   290 RERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSVWEAIFGKKTLQKPF 344
             R +GVE+AQS I TL +KGF VN KAV+EF+DK+APF S  WEAIF KK  +KPF
Sbjct:   248 RVKGVEQAQSAIDTLNQKGFAVNVKAVKEFMDKRAPFPSLAWEAIFKKKPTEKPF 302

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2831869 AT5G03560 [Arabidopsis thaliana (taxid:3702)]

 Score = 340 (124.7 bits), Expect = 6.9e-31, P = 6.9e-31
 Identities = 71/195 (36%), Positives = 118/195 (60%)

Query:   145 QKPNRNEPISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGT 204
             +KP   EP  E P+   EIF KM+  G    AV M D L KDG   EA++LF  +++K  
Sbjct:   171 KKPAIEEP--EDPKNLQEIFHKMRTEGFTNEAVKMFDALSKDGRTHEALELFSQIKDKNR 228

Query:   205 IPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKL-EEAV 263
             +P+VV +TA+V+ +  A +  +  ++F +M ++G++PNA++Y++LI+GL    K  ++A 
Sbjct:   229 MPDVVAHTAIVEAYANAGQAKETLKVFMRMLASGVSPNAYTYSVLIKGLAADGKTHKDAK 288

Query:   264 EYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLD-K 322
             +Y +EM+  G SPN  T+  + +   RE   E A+ ++  +K KGF+ ++KAVRE L+ K
Sbjct:   289 KYLLEMMGNGMSPNAATYTAVFEAFVREGKEESARELLQEMKGKGFVPDEKAVREALEYK 348

Query:   323 KAPFSSSVWEAIFGK 337
             +     +V   +F K
Sbjct:   349 RGQVFRTVINLLFDK 363

GO:0009507 "chloroplast" evidence=ISM

GO:0015391 "nucleobase:cation symporter activity" evidence=ISS

GO:0015931 "nucleobase-containing compound transport" evidence=ISS

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

 Score = 284 (105.0 bits), Expect = 4.2e-24, P = 4.2e-24
 Identities = 53/151 (35%), Positives = 91/151 (60%)

Query:   159 EADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVV 215
             EA E++ +M   G+ P+ +   +++DG CK+  + EA ++F LM  KG  P++V Y+ ++
Sbjct:   333 EAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILI 392

Query:   216 DGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS 275
             + +CKA++ DD  R+FR++ S G+ PN  +YN L+ G  +  KL  A E   EM+  G  
Sbjct:   393 NSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVP 452

Query:   276 PNVTTFVGLVDGLCRERGVEKAQSVIATLKE 306
             P+V T+  L+DGLC    + KA  +   +++
Sbjct:   453 PSVVTYGILLDGLCDNGELNKALEIFEKMQK 483

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:1009023134 AT1G12775 [Arabidopsis thaliana (taxid:3702)]

 Score = 281 (104.0 bits), Expect = 9.7e-24, P = 9.7e-24
 Identities = 50/152 (32%), Positives = 93/152 (61%)

Query:   158 QEADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAV 214
             +EAD++ K+M + G+ PN +   +++DG CK+  ++EA+++  LM  KG  P+++ +  +
Sbjct:   350 READQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNIL 409

Query:   215 VDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH 274
             ++G+CKA + DD   +FR+M   G+  N  +YN L+QG  +  KLE A +   EM+    
Sbjct:   410 INGYCKANRIDDGLELFREMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRV 469

Query:   275 SPNVTTFVGLVDGLCRERGVEKAQSVIATLKE 306
              P++ ++  L+DGLC    +EKA  +   +++
Sbjct:   470 RPDIVSYKILLDGLCDNGELEKALEIFGKIEK 501

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2174008 AT5G61990 "AT5G61990" [Arabidopsis thaliana (taxid:3702)]

 Score = 275 (101.9 bits), Expect = 9.6e-23, P = 9.6e-23
 Identities = 57/156 (36%), Positives = 91/156 (58%)

Query:   160 ADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVD 216
             AD+  K+M+E G++PN V    +++  CK G + EA   +  M ++G + +   YT +++
Sbjct:   541 ADKYVKEMRECGVLPNKVLCTGLINEYCKKGKVIEACSAYRSMVDQGILGDAKTYTVLMN 600

Query:   217 GFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP 276
             G  K  K DDA+ IFR+M+  GIAP+ FSY +LI G  K   +++A     EM+E G +P
Sbjct:   601 GLFKNDKVDDAEEIFREMRGKGIAPDVFSYGVLINGFSKLGNMQKASSIFDEMVEEGLTP 660

Query:   277 NVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVN 312
             NV  +  L+ G CR   +EKA+ ++  +  KG   N
Sbjct:   661 NVIIYNMLLGGFCRSGEIEKAKELLDEMSVKGLHPN 696

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2195047 AT1G12620 [Arabidopsis thaliana (taxid:3702)]

 Score = 271 (100.5 bits), Expect = 1.1e-22, P = 1.1e-22
 Identities = 56/152 (36%), Positives = 88/152 (57%)

Query:   160 ADEIFKKMKETGLIPNAVA---MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVD 216
             A E+ +KM+E  +  +AV    ++DGLCKDG +  A  LF  M  KG   +++IYT ++ 
Sbjct:   231 AMELLRKMEERKIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIIIYTTLIR 290

Query:   217 GFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP 276
             GFC A ++DD  ++ R M    I P+  +++ LI    K  KL EA E   EM++ G SP
Sbjct:   291 GFCYAGRWDDGAKLLRDMIKRKITPDVVAFSALIDCFVKEGKLREAEELHKEMIQRGISP 350

Query:   277 NVTTFVGLVDGLCRERGVEKAQSVIATLKEKG 308
             +  T+  L+DG C+E  ++KA  ++  +  KG
Sbjct:   351 DTVTYTSLIDGFCKENQLDKANHMLDLMVSKG 382

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2139732 AT4G11690 [Arabidopsis thaliana (taxid:3702)]

 Score = 269 (99.8 bits), Expect = 1.4e-22, P = 1.4e-22
 Identities = 51/150 (34%), Positives = 89/150 (59%)

Query:   162 EIFKKMKETGLIPNAVA---MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGF 218
             E+++KM+E G+ PN      +++ LCKDG  ++A ++F  MRE+G    +V Y  ++ G 
Sbjct:   254 EMYEKMQEDGVFPNLYTYNCVMNQLCKDGRTKDAFQVFDEMRERGVSCNIVTYNTLIGGL 313

Query:   219 CKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNV 278
             C+  K ++A ++  +M+S+GI PN  +YN LI G     KL +A+  C ++   G SP++
Sbjct:   314 CREMKLNEANKVVDQMKSDGINPNLITYNTLIDGFCGVGKLGKALSLCRDLKSRGLSPSL 373

Query:   279 TTFVGLVDGLCRERGVEKAQSVIATLKEKG 308
              T+  LV G CR+     A  ++  ++E+G
Sbjct:   374 VTYNILVSGFCRKGDTSGAAKMVKEMEERG 403

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2163041 AT5G41170 [Arabidopsis thaliana (taxid:3702)]

 Score = 265 (98.3 bits), Expect = 3.1e-22, P = 3.1e-22
 Identities = 52/152 (34%), Positives = 87/152 (57%)

Query:   159 EADEIFKKMKETGLIPNA---VAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVV 215
             +A+E++ +M    + PN     ++++G C +G + EA ++F LM  KG  P+VV YT+++
Sbjct:   265 DAEELYNEMIRMSIAPNIFTYTSLINGFCMEGCVDEARQMFYLMETKGCFPDVVAYTSLI 324

Query:   216 DGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS 275
             +GFCK +K DDA +IF +M   G+  N  +Y  LIQG  +  K   A E    M+  G  
Sbjct:   325 NGFCKCKKVDDAMKIFYEMSQKGLTGNTITYTTLIQGFGQVGKPNVAQEVFSHMVSRGVP 384

Query:   276 PNVTTFVGLVDGLCRERGVEKAQSVIATLKEK 307
             PN+ T+  L+  LC    V+KA  +   ++++
Sbjct:   385 PNIRTYNVLLHCLCYNGKVKKALMIFEDMQKR 416

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2161408 AT5G46100 "AT5G46100" [Arabidopsis thaliana (taxid:3702)]

 Score = 262 (97.3 bits), Expect = 4.4e-22, P = 4.4e-22
 Identities = 54/150 (36%), Positives = 90/150 (60%)

Query:   162 EIFKKMKETGLIPNAVA---MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGF 218
             +IF +M + G  P++     ++ GLC+ G I EA KLF  M EK   P VV YT++++G 
Sbjct:   178 KIFLEMPKRGCDPDSYTYGTLISGLCRFGRIDEAKKLFTEMVEKDCAPTVVTYTSLINGL 237

Query:   219 CKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNV 278
             C ++  D+A R   +M+S GI PN F+Y+ L+ GL K  +  +A+E    M+  G  PN+
Sbjct:   238 CGSKNVDEAMRYLEEMKSKGIEPNVFTYSSLMDGLCKDGRSLQAMELFEMMMARGCRPNM 297

Query:   279 TTFVGLVDGLCRERGVEKAQSVIATLKEKG 308
              T+  L+ GLC+E+ +++A  ++  +  +G
Sbjct:   298 VTYTTLITGLCKEQKIQEAVELLDRMNLQG 327

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2026207 AT1G62680 [Arabidopsis thaliana (taxid:3702)]

 Score = 264 (98.0 bits), Expect = 4.4e-22, P = 4.4e-22
 Identities = 52/152 (34%), Positives = 93/152 (61%)

Query:   159 EADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVV 215
             EA E+F++M    + P+ V   ++++GLC    I EA ++F LM  KG + +VV Y  ++
Sbjct:   278 EAKELFEEMVRMSIDPDIVTYSSLINGLCLHDRIDEANQMFDLMVSKGCLADVVSYNTLI 337

Query:   216 DGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS 275
             +GFCKA++ +D  ++FR+M   G+  N  +YN LIQG ++   +++A E+  +M   G S
Sbjct:   338 NGFCKAKRVEDGMKLFREMSQRGLVSNTVTYNTLIQGFFQAGDVDKAQEFFSQMDFFGIS 397

Query:   276 PNVTTFVGLVDGLCRERGVEKAQSVIATLKEK 307
             P++ T+  L+ GLC    +EKA  +   ++++
Sbjct:   398 PDIWTYNILLGGLCDNGELEKALVIFEDMQKR 429

GO:0005739 "mitochondrion" evidence=ISM

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9SZL5	PP356_ARATH	No assigned EC number	0.6027	0.7558	0.8609	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	344
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-10
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-09
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	6e-07
pfam01535	31	pfam01535, PPR, PPR repeat	9e-07
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-06
pfam01535	31	pfam01535, PPR, PPR repeat	4e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	1e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-05
pfam01535	31	pfam01535, PPR, PPR repeat	5e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-04
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.001
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.002

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

 Score = 71.3 bits (176), Expect = 4e-16
 Identities = 22/50 (44%), Positives = 36/50 (72%)

Query: 206 PEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK 255
           P+VV Y  ++DG+CK  K ++A ++F +M+  GI PN ++Y++LI GL 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 = 60.9 bits (149), Expect = 2e-12
 Identities = 23/50 (46%), Positives = 32/50 (64%)

Query: 241 PNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCR 290
           P+  +YN LI G  K  K+EEA++   EM + G  PNV T+  L+DGLC+
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 = 56.6 bits (138), Expect = 5e-11
 Identities = 21/50 (42%), Positives = 33/50 (66%), Gaps = 3/50 (6%)

Query: 174 PNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCK 220
           P+ V    ++DG CK G ++EA+KLF  M+++G  P V  Y+ ++DG CK
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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 62.6 bits (152), Expect = 1e-10
 Identities = 38/152 (25%), Positives = 73/152 (48%), Gaps = 3/152 (1%)

Query: 160 ADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVD 216
           A  I+  MK+ G+ P+ V   A++D     G + +A ++    R++G     V Y++++ 
Sbjct: 633 ALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMG 692

Query: 217 GFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP 276
               A+ +  A  ++  ++S  + P   + N LI  L + N+L +A+E   EM   G  P
Sbjct: 693 ACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP 752

Query: 277 NVTTFVGLVDGLCRERGVEKAQSVIATLKEKG 308
           N  T+  L+    R+   +    +++  KE G
Sbjct: 753 NTITYSILLVASERKDDADVGLDLLSQAKEDG 784

Length = 1060

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

 Score = 50.9 bits (123), Expect = 5e-09
 Identities = 13/35 (37%), Positives = 23/35 (65%)

Query: 209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNA 243
           V Y  ++DG CKA + ++A  +F++M+  GI 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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 57.2 bits (138), Expect = 5e-09
 Identities = 53/213 (24%), Positives = 95/213 (44%), Gaps = 35/213 (16%)

Query: 158 QEADEIFKKMKETGLIPNAVA---MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAV 214
           +EA  ++ +M+++G+  +      M+    +  L++ A +    +   G   ++V  TA+
Sbjct: 307 EEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTAL 366

Query: 215 VDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH 274
           VD + K  + +DA+ +F +M       N  S+N LI G     +  +AVE    M+  G 
Sbjct: 367 VDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGV 422

Query: 275 SPNVTTFVGLVDGLCR-----ERGVEKAQS----------------VIATLKEKGFLVND 313
           +PN  TF+ ++   CR     E+G E  QS                +I  L  +G L  D
Sbjct: 423 APNHVTFLAVLSA-CRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLL--D 479

Query: 314 KAVREFLDKKAPFSSSV--WEAIFGKKTLQKPF 344
           +A    + ++APF  +V  W A+     + K  
Sbjct: 480 EAYA--MIRRAPFKPTVNMWAALLTACRIHKNL 510

Length = 697

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

 Score = 56.4 bits (136), Expect = 1e-08
 Identities = 35/115 (30%), Positives = 52/115 (45%), Gaps = 5/115 (4%)

Query: 184 CK-DGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN 242
           CK    ++EA +   L+R     P +  +  ++     +Q  D A R+ R +Q  G+  +
Sbjct: 416 CKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKAD 471

Query: 243 AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKA 297
              Y  LI    K  K++   E   EM+ AG   NV TF  L+DG  R   V KA
Sbjct: 472 CKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKA 526

Length = 1060

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

 Score = 54.5 bits (131), Expect = 4e-08
 Identities = 32/121 (26%), Positives = 56/121 (46%)

Query: 192 AMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQ 251
           A+ ++  M++KG  P+ V ++A+VD    A   D A  I +  +  GI     SY+ L+ 
Sbjct: 633 ALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMG 692

Query: 252 GLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLV 311
                   ++A+E   ++      P V+T   L+  LC    + KA  V++ +K  G   
Sbjct: 693 ACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP 752

Query: 312 N 312
           N
Sbjct: 753 N 753

Length = 1060

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

 Score = 54.5 bits (131), Expect = 5e-08
 Identities = 32/142 (22%), Positives = 66/142 (46%), Gaps = 5/142 (3%)

Query: 159 EADEIFKKMKETGLIPNAVAM--LDGLCKD-GLIQEAMKLFGLMREKGTIPEVVIYTAVV 215
           +A EI +  ++ G+    V+   L G C +    ++A++L+  ++     P V    A++
Sbjct: 667 KAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALI 726

Query: 216 DGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS 275
              C+  +   A  +  +M+  G+ PN  +Y++L+    + +  +  ++   +  E G  
Sbjct: 727 TALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIK 786

Query: 276 PNVTTFVGLVDGLCRERGVEKA 297
           PN+      + GLC  R  EKA
Sbjct: 787 PNL-VMCRCITGLCLRR-FEKA 806

Length = 1060

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

 Score = 45.0 bits (108), Expect = 6e-07
 Identities = 13/34 (38%), Positives = 22/34 (64%)

Query: 202 KGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQ 235
           KG  P+VV Y  ++DG C+A + D+A  +  +M+
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 44.4 bits (106), Expect = 9e-07
 Identities = 11/31 (35%), Positives = 22/31 (70%)

Query: 209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGI 239
           V Y +++ G+CKA K ++A  +F++M+  G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 48.7 bits (116), Expect = 3e-06
 Identities = 32/129 (24%), Positives = 59/129 (45%), Gaps = 8/129 (6%)

Query: 157 PQEADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTA 213
           P +A E +  M++  + P+ +   ++L      G +   +KL  L   KG I  VV+  A
Sbjct: 370 PDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANA 429

Query: 214 VVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG 273
           +++ + K +  D A  +F  +       +  S+  +I GL   N+  EA+ +  +ML   
Sbjct: 430 LIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQML-LT 484

Query: 274 HSPNVTTFV 282
             PN  T +
Sbjct: 485 LKPNSVTLI 493

Length = 857

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

 Score = 42.8 bits (102), Expect = 4e-06
 Identities = 12/26 (46%), Positives = 20/26 (76%)

Query: 178 AMLDGLCKDGLIQEAMKLFGLMREKG 203
           +++ G CK G ++EA++LF  M+EKG
Sbjct: 5   SLISGYCKAGKLEEALELFKEMKEKG 30

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 = 41.2 bits (98), Expect = 1e-05
 Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 3/33 (9%)

Query: 171 GLIPNAV---AMLDGLCKDGLIQEAMKLFGLMR 200
           GL P+ V    ++DGLC+ G + EA++L   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 = 46.4 bits (110), Expect = 1e-05
 Identities = 41/159 (25%), Positives = 74/159 (46%), Gaps = 16/159 (10%)

Query: 162 EIFKKMKETGLIPNAVAMLDGLC---KDGLIQEAMKLFGLMREK-GTIPEVVIYTAVVDG 217
           E+F +M E+G+ P+ V  +  LC   + G++ + ++ F  M EK    P +  Y  VVD 
Sbjct: 575 ELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDL 634

Query: 218 FCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQG--LYKCNKLEE-AVEYCIEMLEAGH 274
             +A K  +A     KM    I P+   +  L+    +++  +L E A ++  E+     
Sbjct: 635 LGRAGKLTEAYNFINKMP---ITPDPAVWGALLNACRIHRHVELGELAAQHIFEL----- 686

Query: 275 SPNVTTFVGLVDGLCRERGV-EKAQSVIATLKEKGFLVN 312
            PN   +  L+  L  + G  ++   V  T++E G  V+
Sbjct: 687 DPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVD 725

Length = 857

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 41.4 bits (98), Expect = 1e-05
 Identities = 9/34 (26%), Positives = 18/34 (52%)

Query: 208 VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAP 241
           +  Y A++    KA   D A  +  +M+++G+ 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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 46.0 bits (109), Expect = 2e-05
 Identities = 33/139 (23%), Positives = 52/139 (37%), Gaps = 39/139 (28%)

Query: 178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVV----------DG---------- 217
           + L  LC  G +++A+KL   M+E     +   Y A+           +G          
Sbjct: 56  SQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSS 115

Query: 218 ---------------FCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEA 262
                          F +  +   A  +F KM       + FS+N+L+ G  K    +EA
Sbjct: 116 HPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKAGYFDEA 171

Query: 263 VEYCIEMLEAGHSPNVTTF 281
           +     ML AG  P+V TF
Sbjct: 172 LCLYHRMLWAGVRPDVYTF 190

Length = 857

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

 Score = 44.9 bits (106), Expect = 4e-05
 Identities = 36/187 (19%), Positives = 69/187 (36%), Gaps = 40/187 (21%)

Query: 162 EIFKKMKETGLIPNA---VAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYT------ 212
           E+F +M   G+  N     A++DG  + G + +A   +G+MR K   P+ V++       
Sbjct: 493 EVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISAC 552

Query: 213 ----AVVDGF---------------------------CKAQKFDDAKRIFRKMQSNGIAP 241
               AV   F                             A + D AK +++ +    I  
Sbjct: 553 GQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG 612

Query: 242 NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVI 301
               Y + +    +    + A+    +M + G  P+   F  LVD       ++KA  ++
Sbjct: 613 TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEIL 672

Query: 302 ATLKEKG 308
              +++G
Sbjct: 673 QDARKQG 679

Length = 1060

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

 Score = 39.8 bits (94), Expect = 4e-05
 Identities = 14/29 (48%), Positives = 22/29 (75%)

Query: 178 AMLDGLCKDGLIQEAMKLFGLMREKGTIP 206
            ++DGLCK G ++EA++LF  M+E+G  P
Sbjct: 5   TLIDGLCKAGRVEEALELFKEMKERGIEP 33

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 = 39.8 bits (94), Expect = 4e-05
 Identities = 17/35 (48%), Positives = 22/35 (62%)

Query: 244 FSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNV 278
            +YN LI GL K  ++EEA+E   EM E G  P+V
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|144943 pfam01535, PPR, PPR repeat

 Score = 39.4 bits (93), Expect = 5e-05
 Identities = 16/30 (53%), Positives = 18/30 (60%)

Query: 244 FSYNLLIQGLYKCNKLEEAVEYCIEMLEAG 273
            +YN LI G  K  KLEEA+E   EM E G
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

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

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

 Score = 44.8 bits (106), Expect = 5e-05
 Identities = 23/92 (25%), Positives = 39/92 (42%), Gaps = 1/92 (1%)

Query: 179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSN- 237
           +L G    G    A++LF  M E G  P+ V + +++    ++         F  M+   
Sbjct: 560 LLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKY 619

Query: 238 GIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEM 269
            I PN   Y  ++  L +  KL EA  +  +M
Sbjct: 620 SITPNLKHYACVVDLLGRAGKLTEAYNFINKM 651

Length = 857

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

 Score = 38.5 bits (91), Expect = 1e-04
 Identities = 13/31 (41%), Positives = 21/31 (67%), Gaps = 3/31 (9%)

Query: 158 QEADEIFKKMKETGLIPNAV---AMLDGLCK 185
           +EA ++F +MK+ G+ PN      ++DGLCK
Sbjct: 20  EEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 38.5 bits (91), Expect = 1e-04
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 237 NGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEM 269
            G+ P+  +YN LI GL +  +++EAVE   EM
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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 = 5e-04
 Identities = 30/131 (22%), Positives = 61/131 (46%), Gaps = 5/131 (3%)

Query: 159 EADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGF 218
           EA+++F +M ET    +  AM+ G  K+GL  +A++ + LM +    P+ +   +V+   
Sbjct: 341 EAEKVFSRM-ETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSAC 399

Query: 219 CKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNV 278
                 D   ++    +  G+       N LI+   KC  +++A+E    + E     +V
Sbjct: 400 ACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DV 455

Query: 279 TTFVGLVDGLC 289
            ++  ++ GL 
Sbjct: 456 ISWTSIIAGLR 466

Length = 857

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

 Score = 40.2 bits (94), Expect = 0.001
 Identities = 41/174 (23%), Positives = 76/174 (43%), Gaps = 14/174 (8%)

Query: 157 PQEADEIFKKMKETGLIPNA---VAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTA 213
            +EA  +F++M E G        V ML      G  +   +L   + + G + +  +  A
Sbjct: 205 YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCA 264

Query: 214 VVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQG--LYKCNKLEEAVEYCIEMLE 271
           ++D + K    +DA+ +F  M          ++N ++ G  L+  +  EEA+    EM +
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMPEKTTV----AWNSMLAGYALHGYS--EEALCLYYEMRD 318

Query: 272 AGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGF---LVNDKAVREFLDK 322
           +G S +  TF  ++    R   +E A+   A L   GF   +V + A+ +   K
Sbjct: 319 SGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSK 372

Length = 697

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

 Score = 39.9 bits (93), Expect = 0.002
 Identities = 29/132 (21%), Positives = 67/132 (50%), Gaps = 4/132 (3%)

Query: 176 AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQ 235
           + A++D   K G I++A  +F  M EK T    V + +++ G+      ++A  ++ +M+
Sbjct: 262 SCALIDMYSKCGDIEDARCVFDGMPEKTT----VAWNSMLAGYALHGYSEEALCLYYEMR 317

Query: 236 SNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVE 295
            +G++ + F+++++I+   +   LE A +    ++  G   ++     LVD   +   +E
Sbjct: 318 DSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRME 377

Query: 296 KAQSVIATLKEK 307
            A++V   +  K
Sbjct: 378 DARNVFDRMPRK 389

Length = 697

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	344
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.98
PLN03218	1060	maturation of RBCL 1; Provisional	99.97
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.97
PLN03218	1060	maturation of RBCL 1; Provisional	99.97
PLN03077	857	Protein ECB2; Provisional	99.96
PLN03077	857	Protein ECB2; Provisional	99.96
PF13041	50	PPR_2: PPR repeat family	99.43
PF13041	50	PPR_2: PPR repeat family	99.41
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.17
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.15
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.11
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.05
PF12854	34	PPR_1: PPR repeat	98.8
PF12854	34	PPR_1: PPR repeat	98.77
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.75
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.71
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.57
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.42
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.35
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.3
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.28
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.26
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.24
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.21
PRK12370	553	invasion protein regulator; Provisional	98.18
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.12
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.07
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.04
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.04
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.02
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.97
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.97
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.93
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.87
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.87
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	97.85
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	97.84
PRK14574	822	hmsH outer membrane protein; Provisional	97.82
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.81
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	97.78
PRK14574	822	hmsH outer membrane protein; Provisional	97.78
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.77
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.76
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.76
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.75
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.71
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	97.71
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.66
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.66
PRK12370	553	invasion protein regulator; Provisional	97.65
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	97.65
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.61
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.58
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.57
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	97.56
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.53
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	97.5
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.4
KOG2003	840	consensus TPR repeat-containing protein [General f	97.39
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	97.37
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	97.26
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.26
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.24
PRK11189	296	lipoprotein NlpI; Provisional	97.22
PRK11189	296	lipoprotein NlpI; Provisional	97.2
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.2
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	97.15
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.13
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.11
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.06
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.04
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.02
PRK15359	144	type III secretion system chaperone protein SscB;	96.99
KOG1126	638	consensus DNA-binding cell division cycle control	96.99
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	96.97
PRK15359	144	type III secretion system chaperone protein SscB;	96.97
PRK10370	198	formate-dependent nitrite reductase complex subuni	96.97
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	96.96
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	96.95
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	96.94
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	96.93
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	96.89
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	96.87
KOG1129	478	consensus TPR repeat-containing protein [General f	96.86
KOG1126	638	consensus DNA-binding cell division cycle control	96.75
COG4783	484	Putative Zn-dependent protease, contains TPR repea	96.74
KOG2003	840	consensus TPR repeat-containing protein [General f	96.72
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	96.71
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	96.7
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	96.66
PRK10370	198	formate-dependent nitrite reductase complex subuni	96.56
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	96.53
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	96.49
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.45
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	96.41
KOG1915	677	consensus Cell cycle control protein (crooked neck	96.4
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	96.4
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	96.37
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	96.35
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.33
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.33
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	96.31
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	96.29
COG4783	484	Putative Zn-dependent protease, contains TPR repea	96.29
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	96.23
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	96.23
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	96.21
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.19
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.16
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	96.13
KOG3941	406	consensus Intermediate in Toll signal transduction	96.04
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.03
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.01
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	95.99
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	95.97
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	95.97
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.96
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	95.84
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.81
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	95.8
KOG2076	895	consensus RNA polymerase III transcription factor	95.8
KOG3941	406	consensus Intermediate in Toll signal transduction	95.77
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	95.65
KOG1129	478	consensus TPR repeat-containing protein [General f	95.63
PF12688	120	TPR_5: Tetratrico peptide repeat	95.51
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	95.41
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.38
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.28
KOG0547	606	consensus Translocase of outer mitochondrial membr	95.27
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	95.25
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	95.25
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	95.21
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	95.17
KOG1915	677	consensus Cell cycle control protein (crooked neck	94.97
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	94.89
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.86
KOG2076	895	consensus RNA polymerase III transcription factor	94.75
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	94.74
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	94.72
PLN02789	320	farnesyltranstransferase	94.71
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	94.58
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	94.57
KOG3785	557	consensus Uncharacterized conserved protein [Funct	94.47
PRK10803	263	tol-pal system protein YbgF; Provisional	94.44
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	94.4
KOG3616	1636	consensus Selective LIM binding factor [Transcript	94.35
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	94.14
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	94.02
KOG0547	606	consensus Translocase of outer mitochondrial membr	94.02
KOG2047	835	consensus mRNA splicing factor [RNA processing and	93.87
PRK04841	903	transcriptional regulator MalT; Provisional	93.81
PF12688	120	TPR_5: Tetratrico peptide repeat	93.75
KOG1128	777	consensus Uncharacterized conserved protein, conta	93.61
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	93.56
KOG4340	459	consensus Uncharacterized conserved protein [Funct	93.51
KOG3785	557	consensus Uncharacterized conserved protein [Funct	93.48
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	93.43
KOG2376	652	consensus Signal recognition particle, subunit Srp	93.28
KOG3616	1636	consensus Selective LIM binding factor [Transcript	93.2
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	93.05
PLN02789	320	farnesyltranstransferase	93.01
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	92.97
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	92.95
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.94
PRK14720	906	transcript cleavage factor/unknown domain fusion p	92.94
KOG3060	289	consensus Uncharacterized conserved protein [Funct	92.93
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	92.88
KOG4340	459	consensus Uncharacterized conserved protein [Funct	92.79
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	92.7
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	92.67
PF13371	73	TPR_9: Tetratricopeptide repeat	92.67
KOG0495	913	consensus HAT repeat protein [RNA processing and m	92.41
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	92.27
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	92.16
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	92.12
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	92.11
PRK14720	906	transcript cleavage factor/unknown domain fusion p	91.61
PRK10803	263	tol-pal system protein YbgF; Provisional	91.51
KOG3060	289	consensus Uncharacterized conserved protein [Funct	91.49
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	91.44
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	90.57
PF13371	73	TPR_9: Tetratricopeptide repeat	90.43
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	90.28
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.07
PRK04841	903	transcriptional regulator MalT; Provisional	90.03
KOG2796	366	consensus Uncharacterized conserved protein [Funct	89.92
KOG0495	913	consensus HAT repeat protein [RNA processing and m	89.69
COG4105	254	ComL DNA uptake lipoprotein [General function pred	89.57
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	89.4
KOG1125	579	consensus TPR repeat-containing protein [General f	89.25
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	89.24
PF13762	145	MNE1: Mitochondrial splicing apparatus component	89.1
KOG0553	304	consensus TPR repeat-containing protein [General f	89.05
smart00299	140	CLH Clathrin heavy chain repeat homology.	88.88
COG3629	280	DnrI DNA-binding transcriptional activator of the	88.83
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	88.83
KOG2047	835	consensus mRNA splicing factor [RNA processing and	88.61
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	88.22
KOG2376	652	consensus Signal recognition particle, subunit Srp	88.16
KOG1128	777	consensus Uncharacterized conserved protein, conta	88.02
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	87.73
PF13929	292	mRNA_stabil: mRNA stabilisation	87.66
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	87.47
KOG2391	365	consensus Vacuolar sorting protein/ubiquitin recep	86.99
KOG0553	304	consensus TPR repeat-containing protein [General f	86.87
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	86.8
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	86.78
PF13512	142	TPR_18: Tetratricopeptide repeat	86.55
KOG4570	418	consensus Uncharacterized conserved protein [Funct	85.72
COG4700	251	Uncharacterized protein conserved in bacteria cont	85.67
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	85.63
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	85.27
KOG4570	418	consensus Uncharacterized conserved protein [Funct	85.27
PRK15331	165	chaperone protein SicA; Provisional	85.26
PF13512	142	TPR_18: Tetratricopeptide repeat	85.03
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	84.59
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	84.38
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	84.27
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	84.1
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	83.61
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	83.49
PF13929	292	mRNA_stabil: mRNA stabilisation	83.22
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	82.99
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	82.45
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	81.84
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	81.77
PRK15331	165	chaperone protein SicA; Provisional	80.66
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	80.45
PF13762	145	MNE1: Mitochondrial splicing apparatus component	80.21
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	80.04

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

Probab=99.98  E-value=7.9e-32  Score=282.15  Aligned_cols=223  Identities=18%  Similarity=0.212  Sum_probs=165.9

Q ss_pred             ccCchhHHhhhhhcCCCCCCCCCcccccchhcccccCC------------------------CCCCCCCHHHHHHHHHHH
Q 047934          112 VQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNR------------------------NEPISEPPQEADEIFKKM  167 (344)
Q Consensus       112 ~~~~h~~~~k~gl~~~~~v~~~l~~~~~~~~~y~~~~~------------------------~~~~sg~~~~A~~lf~~M  167 (344)
                      +.++|+.+++.|+..+.++.++|+      ..|.++.+                        .|...|++++|.++|++|
T Consensus       243 ~~~l~~~~~~~g~~~d~~~~n~Li------~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M  316 (697)
T PLN03081        243 GQQLHCCVLKTGVVGDTFVSCALI------DMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEM  316 (697)
T ss_pred             HHHHHHHHHHhCCCccceeHHHHH------HHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            467899999999999999999988      55555432                        122244555555555555


Q ss_pred             HHCCCCCCHH---HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 047934          168 KETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAF  244 (344)
Q Consensus       168 ~~~gi~p~~~---tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~  244 (344)
                      .+.|+.|+..   ++|.+|++.|++++|.+++.+|.+.|+.||..+||+||++|+++|++++|+++|++|.    +||++
T Consensus       317 ~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~  392 (697)
T PLN03081        317 RDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLI  392 (697)
T ss_pred             HHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCee
Confidence            5555544432   3455555555555555555555555555555555566666666666666666666664    35788


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-CCCcccHHHHHHHHhcc
Q 047934          245 SYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE-KGFLVNDKAVREFLDKK  323 (344)
Q Consensus       245 tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~-~Gi~p~~~~~~~Ll~~y  323 (344)
                      |||+||.+|++.|+.++|+++|++|.+.|+.||..||+++|.+|++.|.+++|.++|+.|.+ .|+.|+..+|++++++|
T Consensus       393 t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l  472 (697)
T PLN03081        393 SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELL  472 (697)
T ss_pred             eHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999986 69999999999999999


Q ss_pred             CCCChHH-----------------HHHHhcCccCCCCC
Q 047934          324 APFSSSV-----------------WEAIFGKKTLQKPF  344 (344)
Q Consensus       324 ak~g~~~-----------------W~all~~~~~~~~~  344 (344)
                      ++.|...                 |+++++.|+.++.+
T Consensus       473 ~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~  510 (697)
T PLN03081        473 GREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNL  510 (697)
T ss_pred             HhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCc
Confidence            9988542                 99999999888753

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.97  E-value=5.2e-30  Score=275.57  Aligned_cols=204  Identities=18%  Similarity=0.261  Sum_probs=129.3

Q ss_pred             ccCchhHHhhhhhcCCCCCCCCCcccccchhcccccCCCCCCCCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHcCC
Q 047934          112 VQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGLIPNA---VAMLDGLCKDGL  188 (344)
Q Consensus       112 ~~~~h~~~~k~gl~~~~~v~~~l~~~~~~~~~y~~~~~~~~~sg~~~~A~~lf~~M~~~gi~p~~---~tli~~~~k~g~  188 (344)
                      ...+|..+.+.|+..+.++-+.++             ..|.+.|++++|.++|++|.+.|+.|+.   ++||.+|++.|+
T Consensus       456 A~~lf~~M~~~Gl~pD~~tynsLI-------------~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~  522 (1060)
T PLN03218        456 ALRVLRLVQEAGLKADCKLYTTLI-------------STCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ  522 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHH-------------HHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcC
Confidence            345667777777777776666665             2333455566666666666666666653   356666666666


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--CCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          189 IQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQS--NGIAPNAFSYNLLIQGLYKCNKLEEAVEYC  266 (344)
Q Consensus       189 ~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~--~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf  266 (344)
                      +++|+++|++|.+.|+.||.+|||+||.+|++.|++++|.++|++|.+  .|+.||.+||++||.+|+++|++++|.++|
T Consensus       523 ~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf  602 (1060)
T PLN03218        523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY  602 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            666666666666666666666666666666666666666666666654  456666666666666666666666666666


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          267 IEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       267 ~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      ++|.+.|+.|+..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|+.||++|++.|.
T Consensus       603 ~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~  664 (1060)
T PLN03218        603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGD  664 (1060)
T ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Confidence            66666666666666666666666666666666666666666666666666666666555554

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

Probab=99.97  E-value=1.5e-30  Score=272.52  Aligned_cols=216  Identities=22%  Similarity=0.254  Sum_probs=191.0

Q ss_pred             CCCccCchhHHhhhhhcCCCCCCCCCcccccchhcccccCCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCC
Q 047934          109 PDGVQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGL  188 (344)
Q Consensus       109 ~~~~~~~h~~~~k~gl~~~~~v~~~l~~~~~~~~~y~~~~~~~~~sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~  188 (344)
                      .....++|..+++.|+..+.++.+.++      .       .|.++|++++|.++|++|.+.++. +|++||.+|++.|+
T Consensus       139 ~~~a~~l~~~m~~~g~~~~~~~~n~Li------~-------~y~k~g~~~~A~~lf~~m~~~~~~-t~n~li~~~~~~g~  204 (697)
T PLN03081        139 IRCVKAVYWHVESSGFEPDQYMMNRVL------L-------MHVKCGMLIDARRLFDEMPERNLA-SWGTIIGGLVDAGN  204 (697)
T ss_pred             HHHHHHHHHHHHHhCCCcchHHHHHHH------H-------HHhcCCCHHHHHHHHhcCCCCCee-eHHHHHHHHHHCcC
Confidence            344678999999999999988888777      3       344567799999999999887766 69999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCC-----------------------------------HHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          189 IQEAMKLFGLMREKGTIPE-----------------------------------VVIYTAVVDGFCKAQKFDDAKRIFRK  233 (344)
Q Consensus       189 ~~~A~~lf~~M~~~g~~pd-----------------------------------~~tyn~LI~ay~k~g~~e~A~~vf~~  233 (344)
                      +++|+++|++|.+.|+.||                                   ..+||+||++|+++|++++|.++|+.
T Consensus       205 ~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~  284 (697)
T PLN03081        205 YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDG  284 (697)
T ss_pred             HHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHh
Confidence            9999999999977666555                                   45568889999999999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccH
Q 047934          234 MQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVND  313 (344)
Q Consensus       234 M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~  313 (344)
                      |..    +|+++||+||.+|++.|++++|+++|++|.+.|+.||..||+++|.+|++.|.+++|.+++.+|.+.|+.||.
T Consensus       285 m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~  360 (697)
T PLN03081        285 MPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDI  360 (697)
T ss_pred             CCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCe
Confidence            974    5999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhccCCCChHH----------------HHHHhcCccCCC
Q 047934          314 KAVREFLDKKAPFSSSV----------------WEAIFGKKTLQK  342 (344)
Q Consensus       314 ~~~~~Ll~~yak~g~~~----------------W~all~~~~~~~  342 (344)
                      .++++||++|+++|...                |++|+.++..++
T Consensus       361 ~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G  405 (697)
T PLN03081        361 VANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHG  405 (697)
T ss_pred             eehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcC
Confidence            99999999999999743                888887766554

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.97  E-value=2.1e-29  Score=270.89  Aligned_cols=186  Identities=14%  Similarity=0.210  Sum_probs=170.3

Q ss_pred             ccccCCCCCCCCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHcCCHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHH
Q 047934          144 EQKPNRNEPISEPPQEADEIFKKMKETGLIPNA---VAMLDGLCKDGLIQEAMKLFGLMRE--KGTIPEVVIYTAVVDGF  218 (344)
Q Consensus       144 y~~~~~~~~~sg~~~~A~~lf~~M~~~gi~p~~---~tli~~~~k~g~~~~A~~lf~~M~~--~g~~pd~~tyn~LI~ay  218 (344)
                      |...+..|.+.|++++|.++|++|.+.|+.|+.   ++||.+|++.|++++|+++|++|.+  .|+.||.+||++||.+|
T Consensus       510 ynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay  589 (1060)
T PLN03218        510 FGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC  589 (1060)
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHH
Confidence            333345666688899999999999999999984   4799999999999999999999986  57899999999999999


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          219 CKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQ  298 (344)
Q Consensus       219 ~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~  298 (344)
                      +++|++++|+++|+.|.+.|+.|+..+|++||.+|++.|++++|+++|++|.+.|+.||..||++||.+|++.|++++|.
T Consensus       590 ~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~  669 (1060)
T PLN03218        590 ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF  669 (1060)
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHCCCcccHHHHHHHHhccCCCChH
Q 047934          299 SVIATLKEKGFLVNDKAVREFLDKKAPFSSS  329 (344)
Q Consensus       299 ~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~~  329 (344)
                      ++|++|.+.|+.|+..+|++||++|+++|..
T Consensus       670 ~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~  700 (1060)
T PLN03218        670 EILQDARKQGIKLGTVSYSSLMGACSNAKNW  700 (1060)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhCCCH
Confidence            9999999999999999999999999999863

>PLN03077 Protein ECB2; Provisional

Probab=99.96  E-value=1.1e-29  Score=271.62  Aligned_cols=217  Identities=20%  Similarity=0.231  Sum_probs=187.7

Q ss_pred             CCCCccCchhHHhhhhhcCCCCCCCCCcccccchhcccccCCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcC
Q 047934          108 SPDGVQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDG  187 (344)
Q Consensus       108 ~~~~~~~~h~~~~k~gl~~~~~v~~~l~~~~~~~~~y~~~~~~~~~sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g  187 (344)
                      ..+.+.++|..+++.|+..+..+.++++      ..|.+       +|++++|.++|++|.++++. +|++||.+|++.|
T Consensus       404 ~~~~a~~l~~~~~~~g~~~~~~~~n~Li------~~y~k-------~g~~~~A~~vf~~m~~~d~v-s~~~mi~~~~~~g  469 (857)
T PLN03077        404 DLDVGVKLHELAERKGLISYVVVANALI------EMYSK-------CKCIDKALEVFHNIPEKDVI-SWTSIIAGLRLNN  469 (857)
T ss_pred             hHHHHHHHHHHHHHhCCCcchHHHHHHH------HHHHH-------cCCHHHHHHHHHhCCCCCee-eHHHHHHHHHHCC
Confidence            3456778999999999999998888888      55544       56699999999999998877 6999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHH-----------------------------------HHHHHcCCHHHHHHHHH
Q 047934          188 LIQEAMKLFGLMREKGTIPEVVIYTAVV-----------------------------------DGFCKAQKFDDAKRIFR  232 (344)
Q Consensus       188 ~~~~A~~lf~~M~~~g~~pd~~tyn~LI-----------------------------------~ay~k~g~~e~A~~vf~  232 (344)
                      +.++|+++|++|.+ +++||..||+++|                                   ++|+++|++++|.++|+
T Consensus       470 ~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~  548 (857)
T PLN03077        470 RCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN  548 (857)
T ss_pred             CHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999975 5788887776655                                   55555555555655555


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HCCCcc
Q 047934          233 KMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLK-EKGFLV  311 (344)
Q Consensus       233 ~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~-~~Gi~p  311 (344)
                      .|     .+|.++||+||.+|++.|+.++|+++|++|.+.|+.||..||+++|.+|++.|++++|.++|+.|. +.|+.|
T Consensus       549 ~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P  623 (857)
T PLN03077        549 SH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITP  623 (857)
T ss_pred             hc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCC
Confidence            54     568999999999999999999999999999999999999999999999999999999999999999 789999


Q ss_pred             cHHHHHHHHhccCCCChH-----------------HHHHHhcCccCCCCC
Q 047934          312 NDKAVREFLDKKAPFSSS-----------------VWEAIFGKKTLQKPF  344 (344)
Q Consensus       312 ~~~~~~~Ll~~yak~g~~-----------------~W~all~~~~~~~~~  344 (344)
                      +..+|++++++|++.|..                 +|++++++|+.|+.+
T Consensus       624 ~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~  673 (857)
T PLN03077        624 NLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHV  673 (857)
T ss_pred             chHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh
Confidence            999999999999999953                 399999999998863

>PLN03077 Protein ECB2; Provisional

Probab=99.96  E-value=6.1e-29  Score=265.91  Aligned_cols=203  Identities=17%  Similarity=0.236  Sum_probs=147.7

Q ss_pred             CCCccCchhHHhhhhhcCCCCCCCCCcccccchhcccccCCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCC
Q 047934          109 PDGVQSDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGL  188 (344)
Q Consensus       109 ~~~~~~~h~~~~k~gl~~~~~v~~~l~~~~~~~~~y~~~~~~~~~sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~  188 (344)
                      ...+.++|+++++.|+..+.++.++|+      ..|.+       +|++++|.++|++|.+.++. +|++||.+|++.|+
T Consensus       203 ~~~~~~~~~~~~~~g~~~~~~~~n~Li------~~y~k-------~g~~~~A~~lf~~m~~~d~~-s~n~li~~~~~~g~  268 (857)
T PLN03077        203 LARGREVHAHVVRFGFELDVDVVNALI------TMYVK-------CGDVVSARLVFDRMPRRDCI-SWNAMISGYFENGE  268 (857)
T ss_pred             hhhHHHHHHHHHHcCCCcccchHhHHH------HHHhc-------CCCHHHHHHHHhcCCCCCcc-hhHHHHHHHHhCCC
Confidence            345678999999999999999999998      44433       34455555555555554444 35555555555555


Q ss_pred             HHHHHHHHHHHHHcCC-----------------------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          189 IQEAMKLFGLMREKGT-----------------------------------IPEVVIYTAVVDGFCKAQKFDDAKRIFRK  233 (344)
Q Consensus       189 ~~~A~~lf~~M~~~g~-----------------------------------~pd~~tyn~LI~ay~k~g~~e~A~~vf~~  233 (344)
                      +++|+++|++|.+.|+                                   .||..+||+||.+|+++|++++|+++|++
T Consensus       269 ~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~  348 (857)
T PLN03077        269 CLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSR  348 (857)
T ss_pred             HHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhh
Confidence            5555555555555554                                   45555555555555566666666666665


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccH
Q 047934          234 MQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVND  313 (344)
Q Consensus       234 M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~  313 (344)
                      |.    +||.++||+||.+|++.|++++|+++|++|.+.|+.||..||+.+|.+|++.|++++|.++++.|.+.|+.++.
T Consensus       349 m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~  424 (857)
T PLN03077        349 ME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYV  424 (857)
T ss_pred             CC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcch
Confidence            54    34666677777777777777788888888888899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhccCCCChH
Q 047934          314 KAVREFLDKKAPFSSS  329 (344)
Q Consensus       314 ~~~~~Ll~~yak~g~~  329 (344)
                      .++++||++|+++|..
T Consensus       425 ~~~n~Li~~y~k~g~~  440 (857)
T PLN03077        425 VVANALIEMYSKCKCI  440 (857)
T ss_pred             HHHHHHHHHHHHcCCH
Confidence            9999999999999964

>PF13041 PPR_2: PPR repeat family

Probab=99.43  E-value=3.8e-13  Score=93.05  Aligned_cols=49  Identities=45%  Similarity=1.074  Sum_probs=24.9

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047934          206 PEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLY  254 (344)
Q Consensus       206 pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~  254 (344)
                      ||+++||+||++|++.|++++|.++|++|.+.|++||..||++||++|+
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            4445555555555555555555555555555555555555555555544

>PF13041 PPR_2: PPR repeat family

Probab=99.41  E-value=5.1e-13  Score=92.38  Aligned_cols=50  Identities=40%  Similarity=0.719  Sum_probs=46.8

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 047934          241 PNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCR  290 (344)
Q Consensus       241 pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~  290 (344)
                      ||+++||+||.+|++.|++++|.++|++|.+.|+.||..||++||++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            78999999999999999999999999999999999999999999999874

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.17  E-value=4.6e-10  Score=109.09  Aligned_cols=156  Identities=15%  Similarity=0.091  Sum_probs=80.4

Q ss_pred             CCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      .|++++|.++|+++.+..-.  ..+..+...|.+.|++++|.++|+++.+.+-.....+++.+..+|.+.|++++|...+
T Consensus       193 ~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l  272 (389)
T PRK11788        193 RGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFL  272 (389)
T ss_pred             CCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            45555666665555543211  0112344555555666666666655554322112344555555566666666666666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH---cCCHHHHHHHHHHHHHCC
Q 047934          232 RKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCR---ERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       232 ~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~---~G~~e~a~~l~~~M~~~G  308 (344)
                      +.+.+.  .|+...+..+...|.+.|++++|..+++++.+.  .|+..++..++..+..   .|+.+++..+++.|.+.+
T Consensus       273 ~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~  348 (389)
T PRK11788        273 RRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQ  348 (389)
T ss_pred             HHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHH
Confidence            555543  244444455555555566666666665555443  4555555555555443   335555555666555555


Q ss_pred             CcccH
Q 047934          309 FLVND  313 (344)
Q Consensus       309 i~p~~  313 (344)
                      +.++.
T Consensus       349 ~~~~p  353 (389)
T PRK11788        349 LKRKP  353 (389)
T ss_pred             HhCCC
Confidence            54443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.15  E-value=6.6e-09  Score=100.97  Aligned_cols=169  Identities=14%  Similarity=0.086  Sum_probs=134.0

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 047934          151 EPISEPPQEADEIFKKMKETGLIPNA-------VAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQK  223 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p~~-------~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~  223 (344)
                      +...|++++|.++|+.+.+.+-.+..       ..+...+.+.|+.++|..+|+++.+.. +.+..++..+...|.+.|+
T Consensus       151 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~  229 (389)
T PRK11788        151 YQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGD  229 (389)
T ss_pred             HHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCC
Confidence            34467889999999988876533221       134556778899999999999988753 3356678888899999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          224 FDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIAT  303 (344)
Q Consensus       224 ~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~  303 (344)
                      +++|.++|+++.+.+......+++.++.+|.+.|++++|...++++.+.  .|+...+..+...+.+.|++++|..++++
T Consensus       230 ~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~  307 (389)
T PRK11788        230 YAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLRE  307 (389)
T ss_pred             HHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            9999999999987633323467889999999999999999999998876  46767778899999999999999999998


Q ss_pred             HHHCCCcccHHHHHHHHhccC
Q 047934          304 LKEKGFLVNDKAVREFLDKKA  324 (344)
Q Consensus       304 M~~~Gi~p~~~~~~~Ll~~ya  324 (344)
                      +.+.  .|+...+..++..+.
T Consensus       308 ~l~~--~P~~~~~~~l~~~~~  326 (389)
T PRK11788        308 QLRR--HPSLRGFHRLLDYHL  326 (389)
T ss_pred             HHHh--CcCHHHHHHHHHHhh
Confidence            8876  688888888887655

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.11  E-value=3.3e-09  Score=101.95  Aligned_cols=174  Identities=16%  Similarity=0.179  Sum_probs=135.2

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCHH---HHHHH--HHHcCCHHHH-HHHHHHHHHcC-------------------CCC
Q 047934          152 PISEPPQEADEIFKKMKETGLIPNAV---AMLDG--LCKDGLIQEA-MKLFGLMREKG-------------------TIP  206 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~~~---tli~~--~~k~g~~~~A-~~lf~~M~~~g-------------------~~p  206 (344)
                      ..+|.+.++.-+++.|.++|+..+.-   .|+..  |..+..+--| .+-|-.|.+.|                   .+-
T Consensus       126 IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~vAdL~~E~~PK  205 (625)
T KOG4422|consen  126 ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAVADLLFETLPK  205 (625)
T ss_pred             HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccHHHHHHhhcCC
Confidence            34778999999999999998765543   23322  2222221111 11222332211                   133


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVD  286 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~  286 (344)
                      +..||.+||.++||--..+.|.+++++-.+...+.+..+||.+|.+-.-.-    ..++..+|....+.||..|||++|+
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHHH
Confidence            678999999999999999999999999999999999999999998755432    3788999999999999999999999


Q ss_pred             HHHHcCCHHH----HHHHHHHHHHCCCcccHHHHHHHHhccCCCChH
Q 047934          287 GLCRERGVEK----AQSVIATLKEKGFLVNDKAVREFLDKKAPFSSS  329 (344)
Q Consensus       287 a~~~~G~~e~----a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~~  329 (344)
                      +.++.|+++.    |.+++.+|++-|+.|+..+|..+|.-+.+.++.
T Consensus       282 c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp  328 (625)
T KOG4422|consen  282 CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDP  328 (625)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCc
Confidence            9999998776    478889999999999999999999988877765

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.05  E-value=3.7e-09  Score=101.68  Aligned_cols=143  Identities=24%  Similarity=0.366  Sum_probs=116.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRK  233 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~  233 (344)
                      +|++.+  -+|+..++.+-  +..+||.|+|+-...+.|.+++++-.....+.+..+||.||.+-+-..    ..++..+
T Consensus       192 ~G~vAd--L~~E~~PKT~e--t~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~E  263 (625)
T KOG4422|consen  192 SGAVAD--LLFETLPKTDE--TVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAE  263 (625)
T ss_pred             cccHHH--HHHhhcCCCch--hHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHH
Confidence            455444  45554443221  345799999999999999999999999989999999999998866443    3889999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH-HHHHHHHH
Q 047934          234 MQSNGIAPNAFSYNLLIQGLYKCNKLEE----AVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEK-AQSVIATL  304 (344)
Q Consensus       234 M~~~gi~pd~~tyn~LI~ay~k~g~~~~----A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~-a~~l~~~M  304 (344)
                      |....+.||..|+|+++.+.++.|+++.    |.+++-+|++-|++|...+|..+|.-+++.++..+ +..++.++
T Consensus       264 Misqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI  339 (625)
T KOG4422|consen  264 MISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDI  339 (625)
T ss_pred             HHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHH
Confidence            9999999999999999999999998875    56788899999999999999999999999887643 44444443

>PF12854 PPR_1: PPR repeat

Probab=98.80  E-value=6.3e-09  Score=65.98  Aligned_cols=32  Identities=41%  Similarity=0.694  Sum_probs=16.4

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          238 GIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEM  269 (344)
Q Consensus       238 gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M  269 (344)
                      |+.||.+|||+||.+||+.|++++|.++|++|
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            44455555555555555555555555555544

>PF12854 PPR_1: PPR repeat

Probab=98.77  E-value=8.8e-09  Score=65.29  Aligned_cols=34  Identities=41%  Similarity=0.932  Sum_probs=32.3

Q ss_pred             cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          202 KGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQ  235 (344)
Q Consensus       202 ~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~  235 (344)
                      +|+.||.+|||+||++||+.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            4899999999999999999999999999999984

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

Probab=98.75  E-value=1.3e-06  Score=92.18  Aligned_cols=173  Identities=15%  Similarity=0.102  Sum_probs=119.7

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLIP-NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p-~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      ...|++++|.+.|+.+.+.+-.+ .+..+...+.+.|++++|.+.++.+.+.. +.+..++..+...|.+.|++++|..+
T Consensus       714 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~  792 (899)
T TIGR02917       714 LRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKH  792 (899)
T ss_pred             HHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHH
Confidence            34566666666666666543222 12245666667777777777776666542 34667777777777777777777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCc
Q 047934          231 FRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFL  310 (344)
Q Consensus       231 f~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~  310 (344)
                      |+++.+.. ..+..+++.+...|.+.|+ ++|++.+++..... .-+..++..+...+...|++++|.++++.+.+.+-.
T Consensus       793 ~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~  869 (899)
T TIGR02917       793 YRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE  869 (899)
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            77776653 3466677777777777777 66777777776542 224455667777788899999999999999987654


Q ss_pred             ccHHHHHHHHhccCCCChH
Q 047934          311 VNDKAVREFLDKKAPFSSS  329 (344)
Q Consensus       311 p~~~~~~~Ll~~yak~g~~  329 (344)
                       +..++..+...|.+.|..
T Consensus       870 -~~~~~~~l~~~~~~~g~~  887 (899)
T TIGR02917       870 -AAAIRYHLALALLATGRK  887 (899)
T ss_pred             -ChHHHHHHHHHHHHcCCH
Confidence             788888888888888863

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

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

Probab=98.71  E-value=1.6e-06  Score=91.43  Aligned_cols=151  Identities=11%  Similarity=0.047  Sum_probs=72.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      .|++++|.++++.+.+..-.  ..|..+...|...|++++|...|+.+.+.. +.+...+..+..+|...|++++|..+|
T Consensus       580 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  658 (899)
T TIGR02917       580 KGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSL  658 (899)
T ss_pred             CCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHH
Confidence            44555555555555432211  012234455555555555555555554432 223444555555555555555555555


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          232 RKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       232 ~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +++.+.. +.+..+|..+...+...|++++|.++++.+.... ..+...+..+...+...|++++|.+.+..+...
T Consensus       659 ~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  732 (899)
T TIGR02917       659 KRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKR  732 (899)
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            5554431 1234455555555555555555555555554432 223444444555555555555555555555543

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.57  E-value=1.9e-05  Score=69.39  Aligned_cols=176  Identities=11%  Similarity=0.057  Sum_probs=135.1

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCC-C-CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLI-P-NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~-p-~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A  227 (344)
                      .+...|++++|.+.|++..+..-. + .+..+...|...|++++|.+.|+...+.. +.+...+..+...|...|++++|
T Consensus        40 ~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~g~~~~A  118 (234)
T TIGR02521        40 GYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLCQQGKYEQA  118 (234)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcccHHHH
Confidence            445578999999999998765311 1 12346778889999999999999888764 33667888889999999999999


Q ss_pred             HHHHHHHHHCCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          228 KRIFRKMQSNGI-APNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       228 ~~vf~~M~~~gi-~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      .+.|+....... ......|..+..+|...|++++|...|++..... ..+...+..+...+...|++++|.+++++..+
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  197 (234)
T TIGR02521       119 MQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQ  197 (234)
T ss_pred             HHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999987532 2245577778889999999999999999987753 22466788888899999999999999999887


Q ss_pred             CCCcccHHHHHHHHhccCCCCh
Q 047934          307 KGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       307 ~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      . ...+...+..+...+...|.
T Consensus       198 ~-~~~~~~~~~~~~~~~~~~~~  218 (234)
T TIGR02521       198 T-YNQTAESLWLGIRIARALGD  218 (234)
T ss_pred             h-CCCCHHHHHHHHHHHHHHhh
Confidence            6 33344555555555555554

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

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.42  E-value=7.2e-05  Score=65.66  Aligned_cols=155  Identities=15%  Similarity=0.049  Sum_probs=123.4

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHcCCHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIP--NAVAMLDGLCKDGLIQEAMKLFGLMREKGT-IPEVVIYTAVVDGFCKAQKFDD  226 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~-~pd~~tyn~LI~ay~k~g~~e~  226 (344)
                      .+...|++++|.+.|++..+..-..  .+..+...|...|++++|.+.|+...+... ......+..+-..|...|++++
T Consensus        74 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  153 (234)
T TIGR02521        74 YYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDK  153 (234)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHH
Confidence            3445789999999999888754221  123467788899999999999999887532 2345667778888999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          227 AKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       227 A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      |...|++..... ..+...|..+...+...|++++|...+++.... ...+...+..+...+...|+.++|..+.+.+.+
T Consensus       154 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       154 AEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            999999988753 225678889999999999999999999998876 344667777788888899999999999887765

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

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

Probab=98.35  E-value=7.3e-06  Score=85.18  Aligned_cols=83  Identities=17%  Similarity=0.243  Sum_probs=70.9

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHH
Q 047934          240 APNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREF  319 (344)
Q Consensus       240 ~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~L  319 (344)
                      .|+..+|.+++++-.-+|+.+.|..++.+|++.|+..+..-|-.||-+   .++..-+..++.-|...|+.|+.+|+...
T Consensus       201 ~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~ady  277 (1088)
T KOG4318|consen  201 APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADY  277 (1088)
T ss_pred             CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHH
Confidence            478888888888888889999999999999999988888888888777   78888888888888899999999998888


Q ss_pred             HhccCC
Q 047934          320 LDKKAP  325 (344)
Q Consensus       320 l~~yak  325 (344)
                      +-.+.+
T Consensus       278 vip~l~  283 (1088)
T KOG4318|consen  278 VIPQLS  283 (1088)
T ss_pred             HHhhhc
Confidence            876665

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.30  E-value=1e-06  Score=55.02  Aligned_cols=33  Identities=52%  Similarity=0.816  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC
Q 047934          245 SYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN  277 (344)
Q Consensus       245 tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd  277 (344)
                      +||+||.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            455666666666666666666666655555554

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.

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

Probab=98.28  E-value=1.2e-05  Score=75.00  Aligned_cols=173  Identities=18%  Similarity=0.118  Sum_probs=108.9

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLIPN-AVAMLDGLCKDGLIQEAMKLFGLMREKG-TIPEVVIYTAVVDGFCKAQKFDDAKR  229 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~-~~tli~~~~k~g~~~~A~~lf~~M~~~g-~~pd~~tyn~LI~ay~k~g~~e~A~~  229 (344)
                      +..+++++|.+++....++.-.|. +..++..+.+.++++++.++++...... .+.+...|..+-..+.+.|+.++|+.
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~  167 (280)
T PF13429_consen   88 LQDGDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALR  167 (280)
T ss_dssp             ------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHH
T ss_pred             cccccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            457789999999887766543333 3467888999999999999999877543 45688889999999999999999999


Q ss_pred             HHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          230 IFRKMQSNGIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       230 vf~~M~~~gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      ++++..+.  .| |....+.++..+...|+.+++.+++....... ..|...+..+-.+|...|+.++|..+++...+..
T Consensus       168 ~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~  244 (280)
T PF13429_consen  168 DYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN  244 (280)
T ss_dssp             HHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc
Confidence            99999886  45 47788899999999999999999988877654 4455677888999999999999999999988742


Q ss_pred             CcccHHHHHHHHhccCCCCh
Q 047934          309 FLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       309 i~p~~~~~~~Ll~~yak~g~  328 (344)
                       .-|..+...+-+.+...|.
T Consensus       245 -p~d~~~~~~~a~~l~~~g~  263 (280)
T PF13429_consen  245 -PDDPLWLLAYADALEQAGR  263 (280)
T ss_dssp             -TT-HHHHHHHHHHHT----
T ss_pred             -ccccccccccccccccccc
Confidence             2256666677777777765

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.26  E-value=1.4e-06  Score=54.33  Aligned_cols=34  Identities=35%  Similarity=0.871  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 047934          210 IYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNA  243 (344)
Q Consensus       210 tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~  243 (344)
                      +||+||.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            6888888888888888888888888888888873

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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.24  E-value=1.7e-06  Score=54.05  Aligned_cols=32  Identities=31%  Similarity=0.468  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Q 047934          245 SYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP  276 (344)
Q Consensus       245 tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~p  276 (344)
                      ||+++|.+|++.|+++.|.++|++|++.|++|
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            44444444444444444444444444444443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.21  E-value=2.1e-06  Score=53.59  Aligned_cols=33  Identities=30%  Similarity=0.540  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 047934          209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAP  241 (344)
Q Consensus       209 ~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~p  241 (344)
                      .|||++|.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            466777777777777777777777776666665

>PRK12370 invasion protein regulator; Provisional

Probab=98.18  E-value=0.00039  Score=71.59  Aligned_cols=169  Identities=12%  Similarity=-0.075  Sum_probs=120.3

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPN--AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~--~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      .+++++|...+++..+.+-.-.  +..+-..+...|++++|...|++..+.. +-+...+..+-..|...|++++|...+
T Consensus       317 ~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~  395 (553)
T PRK12370        317 QNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTI  395 (553)
T ss_pred             chHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3568899999998877542211  2234556778999999999999988764 335677888888999999999999999


Q ss_pred             HHHHHCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 047934          232 RKMQSNGIAPNA-FSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLKEKGF  309 (344)
Q Consensus       232 ~~M~~~gi~pd~-~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi  309 (344)
                      ++..+..  |+. ..+..+...+...|++++|...+++..... .| +...+..+-.++...|+.++|...+..+...  
T Consensus       396 ~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--  470 (553)
T PRK12370        396 NECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--  470 (553)
T ss_pred             HHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--
Confidence            9998863  432 233444555777899999999999987653 24 3444666777778899999999999887544  


Q ss_pred             ccc-HHHHHHHHhccCCCCh
Q 047934          310 LVN-DKAVREFLDKKAPFSS  328 (344)
Q Consensus       310 ~p~-~~~~~~Ll~~yak~g~  328 (344)
                      .|+ ....+.+-..|...|.
T Consensus       471 ~~~~~~~~~~l~~~~~~~g~  490 (553)
T PRK12370        471 EITGLIAVNLLYAEYCQNSE  490 (553)
T ss_pred             cchhHHHHHHHHHHHhccHH
Confidence            233 3334444445555554

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.12  E-value=0.00036  Score=73.29  Aligned_cols=172  Identities=12%  Similarity=0.016  Sum_probs=112.9

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCC-CC-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLI-PN-AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKR  229 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~-p~-~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~  229 (344)
                      ...|++++|.+.|+++.+..=. +. +..+-..+.+.|+.++|...|+...+. -+.+...+..+...+...|++++|..
T Consensus        87 l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l-~P~~~~a~~~la~~l~~~g~~~eA~~  165 (656)
T PRK15174         87 LASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLA-FSGNSQIFALHLRTLVLMDKELQAIS  165 (656)
T ss_pred             hhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHCCChHHHHH
Confidence            3478888999999888764311 11 234667778888888888888887764 23356777888888888888888888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 047934          230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGF  309 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi  309 (344)
                      .++.+....-. +...+..+ ..+...|++++|..+++.+....-.++...+..+..++...|+.++|...+..+.+..-
T Consensus       166 ~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p  243 (656)
T PRK15174        166 LARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGL  243 (656)
T ss_pred             HHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            88877654322 22233233 34777888888888888876654333444555556677788888888888888776531


Q ss_pred             cccHHHHHHHHhccCCCC
Q 047934          310 LVNDKAVREFLDKKAPFS  327 (344)
Q Consensus       310 ~p~~~~~~~Ll~~yak~g  327 (344)
                       -+...+..+-..|...|
T Consensus       244 -~~~~~~~~Lg~~l~~~G  260 (656)
T PRK15174        244 -DGAALRRSLGLAYYQSG  260 (656)
T ss_pred             -CCHHHHHHHHHHHHHcC
Confidence             12333333444444333

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.07  E-value=0.0006  Score=71.65  Aligned_cols=152  Identities=13%  Similarity=0.099  Sum_probs=92.9

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH---
Q 047934          153 ISEPPQEADEIFKKMKETGLIPNA---VAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDD---  226 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~p~~---~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~---  226 (344)
                      ..|++++|..+++.+.+..-.+..   ..+...+...|+.++|.+.|+...+.. +-+...+..+-.+|...|++++   
T Consensus       189 ~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~  267 (656)
T PRK15174        189 NKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKL  267 (656)
T ss_pred             HcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHH
Confidence            356666666666665544211111   123455666677777777776666543 2345666666677777777664   


Q ss_pred             -HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          227 -AKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       227 -A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                       |+..|+...+.. .-+...+..+...|.+.|++++|+..+++..... .-+...+..+..++...|++++|...++.+.
T Consensus       268 ~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al  345 (656)
T PRK15174        268 QAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLA  345 (656)
T ss_pred             HHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence             667777666542 1245567777777777777777777777766542 1134455566677777777777777777776


Q ss_pred             HC
Q 047934          306 EK  307 (344)
Q Consensus       306 ~~  307 (344)
                      ..
T Consensus       346 ~~  347 (656)
T PRK15174        346 RE  347 (656)
T ss_pred             Hh
Confidence            54

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

Probab=98.04  E-value=0.00055  Score=71.23  Aligned_cols=153  Identities=14%  Similarity=-0.028  Sum_probs=118.0

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKR  229 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~  229 (344)
                      ...|++++|+..|++..+..-.  -.+..+-..+...|++++|...|+...+.. +-+..+|..+-..|...|++++|..
T Consensus       342 ~~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~  420 (615)
T TIGR00990       342 CLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGK  420 (615)
T ss_pred             HHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            3468899999999887764311  012345666778899999999998887653 3357888888888999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      .|++..+.. ..+...|..+-.+|.+.|++++|+..|++..... .-+...|..+-..+...|++++|.+.|+.....
T Consensus       421 ~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       421 DYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             HHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            999887753 2246677788888889999999999999887642 234677888888889999999999999987764

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

Probab=98.04  E-value=0.00088  Score=69.74  Aligned_cols=171  Identities=13%  Similarity=0.021  Sum_probs=130.8

Q ss_pred             CCCHHHHHHHHHHHHHCC-CCCCHH----HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          154 SEPPQEADEIFKKMKETG-LIPNAV----AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~g-i~p~~~----tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      .+.+++|.+.|+...+.+ ..|+..    .+-..+...|++++|+..|+...+.. +-+..+|..+-..+...|++++|.
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~  385 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAE  385 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHH
Confidence            357899999999988765 344322    34556667999999999999887652 224668888899999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          229 RIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      ..|+...+.. .-+...|..+-..|...|++++|...|++..+.. ..+...+..+-..+.+.|++++|...++...+..
T Consensus       386 ~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~  463 (615)
T TIGR00990       386 EDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF  463 (615)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            9999987763 2357889999999999999999999999988753 2246667778888889999999999999988642


Q ss_pred             CcccHHHHHHHHhccCCCCh
Q 047934          309 FLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       309 i~p~~~~~~~Ll~~yak~g~  328 (344)
                       .-+...+..+-..|...|.
T Consensus       464 -P~~~~~~~~lg~~~~~~g~  482 (615)
T TIGR00990       464 -PEAPDVYNYYGELLLDQNK  482 (615)
T ss_pred             -CCChHHHHHHHHHHHHccC
Confidence             2234555555555554443

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

Probab=98.02  E-value=6.6e-05  Score=70.07  Aligned_cols=152  Identities=15%  Similarity=0.141  Sum_probs=103.8

Q ss_pred             CCCCCHHHHHHHHHHHHHCCC-CCCHH---HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGL-IPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi-~p~~~---tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A  227 (344)
                      ...++++++.++++...+..- ..+..   .+-..+.+.|+.++|+++|+...+.. +-|..+.+.++..+...|+.+++
T Consensus       121 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~  199 (280)
T PF13429_consen  121 YRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYDEA  199 (280)
T ss_dssp             HHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHH
Confidence            346889999999999876432 22332   45667788999999999999988763 22578899999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          228 KRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       228 ~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      ..++....+.. ..|...|..+-.+|...|+.++|+..|++..... +-|......+..++...|+.++|.++.....+
T Consensus       200 ~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  200 REALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT-----------------
T ss_pred             HHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cccccccccccccccccccccccccccccccc
Confidence            99998887653 4456688999999999999999999999987742 33788888999999999999999998876543

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

Probab=97.97  E-value=7.1e-06  Score=49.91  Aligned_cols=28  Identities=46%  Similarity=0.590  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          245 SYNLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       245 tyn~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      ||++||++|++.|++++|.++|++|.+.
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~   29 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRER   29 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHC
Confidence            3444444444444444444444444443

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.

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

Probab=97.97  E-value=7.6e-06  Score=49.78  Aligned_cols=31  Identities=35%  Similarity=0.911  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 047934          209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGI  239 (344)
Q Consensus       209 ~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi  239 (344)
                      +|||+||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3788888888888888888888888887764

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.93  E-value=0.0014  Score=64.69  Aligned_cols=170  Identities=11%  Similarity=0.042  Sum_probs=109.8

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-------------------------
Q 047934          154 SEPPQEADEIFKKMKETGLIPNA--VAMLDGLCKDGLIQEAMKLFGLMREKGTIP-------------------------  206 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~--~tli~~~~k~g~~~~A~~lf~~M~~~g~~p-------------------------  206 (344)
                      .|++++|.+.++++.+..-...+  ..+...|.+.|++++|.+++..+.+.+..+                         
T Consensus       166 ~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~  245 (398)
T PRK10747        166 RNENHAARHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGS  245 (398)
T ss_pred             CCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCH
Confidence            56777777777777665422111  146777777777777777777776554321                         


Q ss_pred             ----------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          207 ----------------EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEML  270 (344)
Q Consensus       207 ----------------d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~  270 (344)
                                      +.....++...+...|+.++|.+++++..+.  .+|..  -.++.+....++.+++++..+...
T Consensus       246 ~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~--l~~l~~~l~~~~~~~al~~~e~~l  321 (398)
T PRK10747        246 EGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDER--LVLLIPRLKTNNPEQLEKVLRQQI  321 (398)
T ss_pred             HHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHH--HHHHHhhccCCChHHHHHHHHHHH
Confidence                            1222234455556666666666666666553  33331  112333334467777777776666


Q ss_pred             HcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCChHH
Q 047934          271 EAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSV  330 (344)
Q Consensus       271 ~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~~~  330 (344)
                      +.. +-|...+.++-..|.+.+++++|++.|+.+.+.  .|+..++..|-..+.+.|...
T Consensus       322 k~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~  378 (398)
T PRK10747        322 KQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPE  378 (398)
T ss_pred             hhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHH
Confidence            542 234556778888899999999999999998875  689888888888888888654

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

Probab=97.87  E-value=0.00014  Score=58.52  Aligned_cols=78  Identities=21%  Similarity=0.441  Sum_probs=56.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHCCCCCCHHHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGT-IPEVVIYTAVVDGFCKAQ--------KFDDAKRIFRKMQSNGIAPNAFSYNL  248 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~-~pd~~tyn~LI~ay~k~g--------~~e~A~~vf~~M~~~gi~pd~~tyn~  248 (344)
                      ..|..|...++......+|..+++.|+ .|++.+||.++.+.++..        ++-+++.+|++|...+++|+..||+.
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            356666667888888888888888887 788888888888777653        23456667777777777777777777


Q ss_pred             HHHHHHH
Q 047934          249 LIQGLYK  255 (344)
Q Consensus       249 LI~ay~k  255 (344)
                      +|..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            7766654

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 [, , ].

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.87  E-value=0.0031  Score=62.17  Aligned_cols=154  Identities=12%  Similarity=0.045  Sum_probs=89.3

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHH--HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHH--HHHHHHHHcCCHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAVAM--LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYT--AVVDGFCKAQKFDDAKR  229 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~tl--i~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn--~LI~ay~k~g~~e~A~~  229 (344)
                      .|+++.|++......+..-.|..+-+  ..+..+.|+.+.|.+++.++.+.  .|+...+-  .....+...|++++|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            56666776666655544322323322  22224566677777776666543  23332222  22445666667777777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC----------------------------------
Q 047934          230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS----------------------------------  275 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~----------------------------------  275 (344)
                      .++.+.+.. +-+......+...|.+.|++++|.+++..+.+.+..                                  
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            766666553 224555666666666667777666666666544322                                  


Q ss_pred             -------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCc
Q 047934          276 -------PNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFL  310 (344)
Q Consensus       276 -------pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~  310 (344)
                             .+......+..++...|+.++|.+++.+..+....
T Consensus       254 ~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~  295 (398)
T PRK10747        254 NQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQYD  295 (398)
T ss_pred             hCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence                   23444555667777788888888888888775443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=97.85  E-value=0.0015  Score=69.88  Aligned_cols=154  Identities=10%  Similarity=-0.036  Sum_probs=90.5

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCC------CHHHHHHHHHHcCCHHHHHHHHHHHHHcC-----------CCCC---HHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIP------NAVAMLDGLCKDGLIQEAMKLFGLMREKG-----------TIPE---VVI  210 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p------~~~tli~~~~k~g~~~~A~~lf~~M~~~g-----------~~pd---~~t  210 (344)
                      +...|++++|+.+|+++.+..-..      ....+..++...|++++|.++++.+.+..           -.|+   ...
T Consensus       282 yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a  361 (765)
T PRK10049        282 YLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQG  361 (765)
T ss_pred             HHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHH
Confidence            344566777777777665432110      01234556667777777777777666531           0122   123


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHH
Q 047934          211 YTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN-VTTFVGLVDGLC  289 (344)
Q Consensus       211 yn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd-~~ty~~lL~a~~  289 (344)
                      +..+...+...|+.++|+++++++.... +-+...+..+...+...|+.++|++.+++....  .|| ...+......+.
T Consensus       362 ~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al  438 (765)
T PRK10049        362 QSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEVL--EPRNINLEVEQAWTAL  438 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHH
Confidence            4455566666777777777777765542 224556666667777777777777777766554  244 444445555666


Q ss_pred             HcCCHHHHHHHHHHHHHC
Q 047934          290 RERGVEKAQSVIATLKEK  307 (344)
Q Consensus       290 ~~G~~e~a~~l~~~M~~~  307 (344)
                      ..|++++|..+++.+.+.
T Consensus       439 ~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        439 DLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HhCCHHHHHHHHHHHHHh
Confidence            677777777777777653

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=97.84  E-value=0.0028  Score=69.31  Aligned_cols=169  Identities=13%  Similarity=0.088  Sum_probs=109.3

Q ss_pred             CCCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETGLI-PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~-p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      ..|++++|...|+++....-. +.+..+...+.+.|+.++|.++|+...+.. +.+...+..+...+...|++++|...|
T Consensus       521 ~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~  599 (987)
T PRK09782        521 QVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDL  599 (987)
T ss_pred             HCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            467888888888876543211 112344556777888888888888777653 222333333333444558888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCc
Q 047934          232 RKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFL  310 (344)
Q Consensus       232 ~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~  310 (344)
                      ++..+.  .|+...|..+-.+|.+.|+.++|+..|++....  .| +...+..+-.++...|+.++|.++++...+.  .
T Consensus       600 ~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l--~  673 (987)
T PRK09782        600 TRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKG--L  673 (987)
T ss_pred             HHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--C
Confidence            877764  456777888888888888888888888887665  34 3455566666777888888888888877664  2


Q ss_pred             c-cHHHHHHHHhccCCCCh
Q 047934          311 V-NDKAVREFLDKKAPFSS  328 (344)
Q Consensus       311 p-~~~~~~~Ll~~yak~g~  328 (344)
                      | +...+..+-..|...|.
T Consensus       674 P~~~~a~~nLA~al~~lGd  692 (987)
T PRK09782        674 PDDPALIRQLAYVNQRLDD  692 (987)
T ss_pred             CCCHHHHHHHHHHHHHCCC
Confidence            3 23344444444444444

>PRK14574 hmsH outer membrane protein; Provisional

Probab=97.82  E-value=0.0018  Score=69.51  Aligned_cols=172  Identities=9%  Similarity=0.052  Sum_probs=125.3

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      .+..|+++.|+..|.+..+..-.  |....++..+...|+.++|+.+++..... ........-++...|...|++++|.
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~Ai  122 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQAL  122 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            45689999999999999875432  22346788888999999999999988721 1223344444466888889999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          229 RIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      ++|+++.+..-. +...+..++..|.+.++.++|++.+++....  .|+...+..++..+...++..+|.+.++++.+..
T Consensus       123 ely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~  199 (822)
T PRK14574        123 ALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA  199 (822)
T ss_pred             HHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC
Confidence            999999887433 4566778899999999999999999998765  4566666444444444566666999999998873


Q ss_pred             CcccHHHHHHHHhccCCCC
Q 047934          309 FLVNDKAVREFLDKKAPFS  327 (344)
Q Consensus       309 i~p~~~~~~~Ll~~yak~g  327 (344)
                       .-+...+..++....+.|
T Consensus       200 -P~n~e~~~~~~~~l~~~~  217 (822)
T PRK14574        200 -PTSEEVLKNHLEILQRNR  217 (822)
T ss_pred             -CCCHHHHHHHHHHHHHcC
Confidence             224555566665555554

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

Probab=97.81  E-value=0.00014  Score=71.83  Aligned_cols=114  Identities=17%  Similarity=0.173  Sum_probs=84.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREK--GTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK  255 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~--g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k  255 (344)
                      .++..+....+++++..++..+...  ....-..|..++|+.|.+.|..+++..+++.=..-|+=||.+|+|.||+.+.+
T Consensus        71 ~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~  150 (429)
T PF10037_consen   71 IFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLK  150 (429)
T ss_pred             HHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhh
Confidence            4566666666777777777776654  23333445568888888888888888888777777888888888888888888


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 047934          256 CNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRE  291 (344)
Q Consensus       256 ~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~  291 (344)
                      .|++..|.++..+|...+...+..|+...+.+|.+.
T Consensus       151 ~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  151 KGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             cccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            888888888888887777777777877777777766

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

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=97.78  E-value=0.0032  Score=68.91  Aligned_cols=150  Identities=11%  Similarity=0.016  Sum_probs=121.5

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCHHH-H---HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLIPNAVA-M---LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~~~t-l---i~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A  227 (344)
                      ...|++++|.+.|++..+.+  |+... .   ...+.+.|++++|...|+...+.  .|+...|..+-.++.+.|+.++|
T Consensus       553 l~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA  628 (987)
T PRK09782        553 QAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAA  628 (987)
T ss_pred             HHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHH
Confidence            34789999999999988764  44432 2   22333459999999999988765  46788999999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          228 KRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       228 ~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +..|++..+.. .-+...++.+-.++...|+.++|+++|++..+.. .-+...+..+-.++...|++++|...++...+.
T Consensus       629 ~~~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        629 VSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDD  706 (987)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            99999988863 2245677788889999999999999999987752 225677888999999999999999999998765

>PRK14574 hmsH outer membrane protein; Provisional

Probab=97.78  E-value=0.0035  Score=67.25  Aligned_cols=154  Identities=12%  Similarity=0.136  Sum_probs=123.1

Q ss_pred             CCCCHHHHHHHHHHHHHCCC-CCCHH--HHHHHHHHcCCHHHHHHHHHHHHHcC-----CCCCHHHHHHHHHHHHHcCCH
Q 047934          153 ISEPPQEADEIFKKMKETGL-IPNAV--AMLDGLCKDGLIQEAMKLFGLMREKG-----TIPEVVIYTAVVDGFCKAQKF  224 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi-~p~~~--tli~~~~k~g~~~~A~~lf~~M~~~g-----~~pd~~tyn~LI~ay~k~g~~  224 (344)
                      .-|++++|++.|+.|...+. .|++.  ++-++|...+.+++|..+|.......     ..++......|.-+|...+++
T Consensus       304 ~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~  383 (822)
T PRK14574        304 VRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQL  383 (822)
T ss_pred             HhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccH
Confidence            35779999999999998884 57776  79999999999999999999986643     233555578999999999999


Q ss_pred             HHHHHHHHHHHHCCC-----------CC--CH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 047934          225 DDAKRIFRKMQSNGI-----------AP--NA-FSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCR  290 (344)
Q Consensus       225 e~A~~vf~~M~~~gi-----------~p--d~-~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~  290 (344)
                      ++|..+++.+.+.--           .|  |= ..+..++..++..|++.+|++.++++... -.-|......+-+.+..
T Consensus       384 ~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~-aP~n~~l~~~~A~v~~~  462 (822)
T PRK14574        384 DKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSST-APANQNLRIALASIYLA  462 (822)
T ss_pred             HHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHh
Confidence            999999999987311           11  11 23456777788999999999999999654 24478888888888889


Q ss_pred             cCCHHHHHHHHHHHHHC
Q 047934          291 ERGVEKAQSVIATLKEK  307 (344)
Q Consensus       291 ~G~~e~a~~l~~~M~~~  307 (344)
                      .|...+|+++++.....
T Consensus       463 Rg~p~~A~~~~k~a~~l  479 (822)
T PRK14574        463 RDLPRKAEQELKAVESL  479 (822)
T ss_pred             cCCHHHHHHHHHHHhhh
Confidence            99999999999665544

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

Probab=97.77  E-value=0.00065  Score=54.72  Aligned_cols=81  Identities=16%  Similarity=0.317  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHHcCC--------HHHHHHHHHHHHHcCCCCCHHH
Q 047934          210 IYTAVVDGFCKAQKFDDAKRIFRKMQSNGI-APNAFSYNLLIQGLYKCNK--------LEEAVEYCIEMLEAGHSPNVTT  280 (344)
Q Consensus       210 tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi-~pd~~tyn~LI~ay~k~g~--------~~~A~~lf~~M~~~gv~pd~~t  280 (344)
                      |-...|.-|...+++...-.+|+.+++.|+ .|++.+|+.++.+-++...        +-.++.+++.|...+++|+..|
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            335566777777999999999999999999 8999999999999887543        3356788889998899999999


Q ss_pred             HHHHHHHHHH
Q 047934          281 FVGLVDGLCR  290 (344)
Q Consensus       281 y~~lL~a~~~  290 (344)
                      |+.+|..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9999887754

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 [, , ].

>TIGR00540 hemY_coli hemY protein

Probab=97.76  E-value=0.0046  Score=61.18  Aligned_cols=172  Identities=10%  Similarity=0.025  Sum_probs=108.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-------------------------
Q 047934          154 SEPPQEADEIFKKMKETGLIPN--AVAMLDGLCKDGLIQEAMKLFGLMREKGTIP-------------------------  206 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~--~~tli~~~~k~g~~~~A~~lf~~M~~~g~~p-------------------------  206 (344)
                      .|+++.|.+.++.+.+..-.-.  ...+...|.+.|++++|.+++..+.+.+...                         
T Consensus       166 ~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~  245 (409)
T TIGR00540       166 QNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGI  245 (409)
T ss_pred             CCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCH
Confidence            6778888888888887642111  1257788888888888888888777665422                         


Q ss_pred             ----------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHH--HHcCCHHHHHHHHH
Q 047934          207 ----------------EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSY-NLLIQGL--YKCNKLEEAVEYCI  267 (344)
Q Consensus       207 ----------------d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~ty-n~LI~ay--~k~g~~~~A~~lf~  267 (344)
                                      +...+-.+...+...|+.++|.+++++..+.  .||.... -.++..+  ...++.+.+.+.++
T Consensus       246 ~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e  323 (409)
T TIGR00540       246 DGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIE  323 (409)
T ss_pred             HHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHH
Confidence                            2333344444555556666666666666554  2222210 0022222  22345555555555


Q ss_pred             HHHHcCCCCCH---HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCChH
Q 047934          268 EMLEAGHSPNV---TTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSS  329 (344)
Q Consensus       268 ~M~~~gv~pd~---~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~~  329 (344)
                      ...+.  .|+.   ....++-..|.+.|++++|.+.|+........|+...+..+-+.+.+.|+.
T Consensus       324 ~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~  386 (409)
T TIGR00540       324 KQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDK  386 (409)
T ss_pred             HHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCH
Confidence            54433  3433   344567777889999999999999766666688998888999999888874

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.

>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=0.00064  Score=60.96  Aligned_cols=49  Identities=18%  Similarity=0.191  Sum_probs=34.1

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHHH
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERG-VEKAQSVIATLKE  306 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~-~e~a~~l~~~M~~  306 (344)
                      +-+.|++++++|...|+.||..|+..|+..+++.+. +.+..+++--|.+
T Consensus       118 Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmpk  167 (228)
T PF06239_consen  118 QQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWMPK  167 (228)
T ss_pred             HHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHHHH
Confidence            345678888888888888888888888888876664 3344555555544

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

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

Probab=97.75  E-value=0.00025  Score=70.17  Aligned_cols=132  Identities=13%  Similarity=0.119  Sum_probs=108.9

Q ss_pred             HHHHHHH---cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          195 LFGLMRE---KGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSN--GIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEM  269 (344)
Q Consensus       195 lf~~M~~---~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~--gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M  269 (344)
                      ++..|.+   .+.+........+++.+....++++++.++-+.+..  ....-..|..++|..|.+.|..+++++++..=
T Consensus        50 ~~~~l~~k~~~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~  129 (429)
T PF10037_consen   50 LYSELDKKFERKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNR  129 (429)
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhCh
Confidence            4444443   356678889999999999999999999999998875  23223345579999999999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCC
Q 047934          270 LEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPF  326 (344)
Q Consensus       270 ~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~  326 (344)
                      ...|+-||..||+.||+.+.+.|++..|.++..+|...+.-.+..|+..-+..|.++
T Consensus       130 ~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  130 LQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999999999999999999999999999999998877666666666655555555

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

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

Probab=97.71  E-value=0.0005  Score=61.60  Aligned_cols=107  Identities=15%  Similarity=0.188  Sum_probs=79.7

Q ss_pred             CCCHHHHHHHHHHHHHc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHH
Q 047934          205 IPEVVIYTAVVDGFCKA-----QKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVT  279 (344)
Q Consensus       205 ~pd~~tyn~LI~ay~k~-----g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~  279 (344)
                      .-|..+|..+|+.|.+.     |.++-....+..|.+-|++-|..+|+.||+.+=+ |.+- -..+|+.|-         
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~F---------  112 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAEF---------  112 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHHh---------
Confidence            34788888888888755     6677788888888888888888888888887765 3221 122222221         


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCChHH
Q 047934          280 TFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSV  330 (344)
Q Consensus       280 ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~~~  330 (344)
                            -.|-  ..-+-|.++++.|+..|+.||.+++..|++.+++.+...
T Consensus       113 ------~hyp--~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~  155 (228)
T PF06239_consen  113 ------MHYP--RQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPM  155 (228)
T ss_pred             ------ccCc--HHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHH
Confidence                  1221  245779999999999999999999999999999999865

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=97.71  E-value=0.003  Score=70.59  Aligned_cols=155  Identities=8%  Similarity=0.007  Sum_probs=119.2

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      +...|+.++|+++++.-+  .-......+-..+.+.|+.++|++.|+...+.. +-+...+..+...|...|+.++|+++
T Consensus       583 l~~~G~~~eA~~~l~~~p--~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~  659 (1157)
T PRK11447        583 LRDSGKEAEAEALLRQQP--PSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQ  659 (1157)
T ss_pred             HHHCCCHHHHHHHHHhCC--CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            445788999999988321  111123467888899999999999999988763 34788999999999999999999999


Q ss_pred             HHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC--CC---CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          231 FRKMQSNGIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH--SP---NVTTFVGLVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       231 f~~M~~~gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv--~p---d~~ty~~lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      ++...+.  .| +...+..+-.++.+.|+.++|.++++++....-  .|   +...+..+...+...|+.++|.+.++..
T Consensus       660 l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~A  737 (1157)
T PRK11447        660 LAKLPAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDA  737 (1157)
T ss_pred             HHHHhcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9988764  33 455677788889999999999999999887532  22   2245555677788999999999999987


Q ss_pred             HH-CCCc
Q 047934          305 KE-KGFL  310 (344)
Q Consensus       305 ~~-~Gi~  310 (344)
                      .. .|+.
T Consensus       738 l~~~~~~  744 (1157)
T PRK11447        738 MVASGIT  744 (1157)
T ss_pred             HhhcCCC
Confidence            53 3454

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

Probab=97.66  E-value=0.002  Score=60.83  Aligned_cols=156  Identities=12%  Similarity=0.090  Sum_probs=72.0

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHHcCC
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPNA--VAMLDGLCKDGLIQEAMKLFGLMREKGTIPE----VVIYTAVVDGFCKAQK  223 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~~--~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd----~~tyn~LI~ay~k~g~  223 (344)
                      +|-++|-+|.|+.+|..+.+.+....-  --|+..|-+..+|++|.++-+.+.+.+-.+.    ...|+-|-..+.-..+
T Consensus       116 Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~  195 (389)
T COG2956         116 DYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSD  195 (389)
T ss_pred             HHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhh
Confidence            344455566666666666554432111  1356666666666666666665555433222    1223333333333344


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          224 FDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIAT  303 (344)
Q Consensus       224 ~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~  303 (344)
                      ++.|+.++.+..+..-+ ++..--.+=+.+...|+++.|.+.++...+.+..--..+...|..+|...|+.+++...+..
T Consensus       196 ~d~A~~~l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~  274 (389)
T COG2956         196 VDRARELLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRR  274 (389)
T ss_pred             HHHHHHHHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            55555555444433100 11111122233344555555555555555544333344444555555555555555555544


Q ss_pred             HHH
Q 047934          304 LKE  306 (344)
Q Consensus       304 M~~  306 (344)
                      +.+
T Consensus       275 ~~~  277 (389)
T COG2956         275 AME  277 (389)
T ss_pred             HHH
Confidence            443

>TIGR00540 hemY_coli hemY protein

Probab=97.66  E-value=0.0047  Score=61.10  Aligned_cols=154  Identities=14%  Similarity=0.088  Sum_probs=81.9

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHH--HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAVAM--LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~tl--i~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      .|+++.|.+.+....+..-.|..+.+  -.++.+.|+.+.|.+++....+..-.+.....-+....+...|+++.|...+
T Consensus        97 ~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l  176 (409)
T TIGR00540        97 EGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGV  176 (409)
T ss_pred             CCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            56666666666655443322222222  2334445666666666666544321111222233355555666666666666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC------------------------------------
Q 047934          232 RKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS------------------------------------  275 (344)
Q Consensus       232 ~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~------------------------------------  275 (344)
                      +.+.+.. +-+...+..+...|.+.|++++|.+++..+.+.++.                                    
T Consensus       177 ~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~  255 (409)
T TIGR00540       177 DKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQ  255 (409)
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHC
Confidence            6666553 114445556666666666666666666555544322                                    


Q ss_pred             C-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          276 P-----NVTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       276 p-----d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      |     +...+..+...+...|+.++|.+++++..+..
T Consensus       256 p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~  293 (409)
T TIGR00540       256 PRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL  293 (409)
T ss_pred             CHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC
Confidence            1     44445555555666666666666666666653

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.

>PRK12370 invasion protein regulator; Provisional

Probab=97.65  E-value=0.0048  Score=63.55  Aligned_cols=168  Identities=13%  Similarity=0.015  Sum_probs=117.4

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHH----HHHHHHH---------HcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 047934          155 EPPQEADEIFKKMKETGLIPNAV----AMLDGLC---------KDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKA  221 (344)
Q Consensus       155 g~~~~A~~lf~~M~~~gi~p~~~----tli~~~~---------k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~  221 (344)
                      +.+++|.++|++..+.+  |+..    .+-.+|.         ..++.++|...++...+.. +-+..++..+-.++...
T Consensus       275 ~~~~~A~~~~~~Al~ld--P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~  351 (553)
T PRK12370        275 YSLQQALKLLTQCVNMS--PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIH  351 (553)
T ss_pred             HHHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHc
Confidence            45789999999887653  3322    1222222         2245789999999888763 33678888888888999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHHcCCHHHHHHH
Q 047934          222 QKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNV-TTFVGLVDGLCRERGVEKAQSV  300 (344)
Q Consensus       222 g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~-~ty~~lL~a~~~~G~~e~a~~l  300 (344)
                      |++++|...|++..+.. .-+...|..+-.+|...|++++|...+++..+..  |+. ..+..++..+...|++++|...
T Consensus       352 g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        352 SEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             cCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHH
Confidence            99999999999998863 2246678888899999999999999999988763  432 2333344456678999999999


Q ss_pred             HHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          301 IATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       301 ~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      +.++.+..-.-+...+..+-..|...|.
T Consensus       429 ~~~~l~~~~p~~~~~~~~la~~l~~~G~  456 (553)
T PRK12370        429 GDELRSQHLQDNPILLSMQVMFLSLKGK  456 (553)
T ss_pred             HHHHHHhccccCHHHHHHHHHHHHhCCC
Confidence            9988765322123333444444555554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=97.65  E-value=0.0051  Score=65.87  Aligned_cols=147  Identities=12%  Similarity=0.074  Sum_probs=117.3

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPN--AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~--~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      .|+.++|+++|.+.....-.+.  +..+...+...|++++|.++|+...+. -+.+...+..+..++...|+.++|...+
T Consensus        28 ~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~-~P~~~~a~~~la~~l~~~g~~~eA~~~l  106 (765)
T PRK10049         28 AGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL-EPQNDDYQRGLILTLADAGQYDEALVKA  106 (765)
T ss_pred             cCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            6889999999999986332322  346778899999999999999998765 2345677788999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          232 RKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       232 ~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      ++..+.. ..+.. |..+-.++...|+.++|+..+++..+.  .| +...+..+..++...|..++|.+.++...
T Consensus       107 ~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~--~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~  177 (765)
T PRK10049        107 KQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPR--APQTQQYPTEYVQALRNNRLSAPALGAIDDAN  177 (765)
T ss_pred             HHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCChHHHHHHHHhCC
Confidence            9998762 23455 888888999999999999999999886  34 45555667777888899998888777443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.61  E-value=0.0058  Score=55.17  Aligned_cols=157  Identities=14%  Similarity=0.062  Sum_probs=111.5

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CCH-HHHHHHHHHHHHc-
Q 047934          150 NEPISEPPQEADEIFKKMKETGLI-PN----AVAMLDGLCKDGLIQEAMKLFGLMREKGTI-PEV-VIYTAVVDGFCKA-  221 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~-p~----~~tli~~~~k~g~~~~A~~lf~~M~~~g~~-pd~-~tyn~LI~ay~k~-  221 (344)
                      .++..|++++|...|+++....-. |.    +..+-..|.+.|++++|...|+.+.+..-. +.. .++..+-.++... 
T Consensus        42 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~  121 (235)
T TIGR03302        42 EALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQI  121 (235)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhc
Confidence            455688999999999998765321 11    124677888999999999999999875321 111 2344444444443 


Q ss_pred             -------CCHHHHHHHHHHHHHCCCCCCHHHH-----------------HHHHHHHHHcCCHHHHHHHHHHHHHcC--CC
Q 047934          222 -------QKFDDAKRIFRKMQSNGIAPNAFSY-----------------NLLIQGLYKCNKLEEAVEYCIEMLEAG--HS  275 (344)
Q Consensus       222 -------g~~e~A~~vf~~M~~~gi~pd~~ty-----------------n~LI~ay~k~g~~~~A~~lf~~M~~~g--v~  275 (344)
                             |+.++|.+.|+.+...... +...+                 -.+-..|.+.|++++|...+++.....  -.
T Consensus       122 ~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~  200 (235)
T TIGR03302       122 DRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTP  200 (235)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCc
Confidence                   6789999999998775222 11122                 134456788899999999999988752  22


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          276 PNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       276 pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      .....+..+..++.+.|+.++|..+++.+...
T Consensus       201 ~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       201 ATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34678889999999999999999999888764

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).

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

Probab=97.58  E-value=0.003  Score=62.13  Aligned_cols=121  Identities=21%  Similarity=0.227  Sum_probs=101.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      +|+..+...++++.|.++|+++.+..  |++  .-.|...+..+++-.+|.+++.+.... .+-|......-...|.+.+
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcC
Confidence            58888888999999999999998874  554  445788888888889999999888764 2346777777788889999


Q ss_pred             CHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          258 KLEEAVEYCIEMLEAGHSPN-VTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd-~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      +.+.|+++.+++...  .|+ -.+|..|..+|...|+++.|...++.+.
T Consensus       249 ~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  249 KYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            999999999998875  565 4589999999999999999999998775

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

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

Probab=97.57  E-value=0.0056  Score=57.87  Aligned_cols=157  Identities=12%  Similarity=0.102  Sum_probs=87.3

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHH
Q 047934          180 LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNA----FSYNLLIQGLYK  255 (344)
Q Consensus       180 i~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~----~tyn~LI~ay~k  255 (344)
                      -.-|...|-++.|..+|..+.+.+.. -....--|+..|-...+|++|.++-+++.+.+-.+..    .-|.-|-..+..
T Consensus       114 ~~Dym~aGl~DRAE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~  192 (389)
T COG2956         114 GRDYMAAGLLDRAEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALA  192 (389)
T ss_pred             HHHHHHhhhhhHHHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhh
Confidence            33444445555555555444443211 1223344555555555555555555555444222111    122333333334


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCChHH-HHH
Q 047934          256 CNKLEEAVEYCIEMLEAGHSPNVTTFV-GLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSV-WEA  333 (344)
Q Consensus       256 ~g~~~~A~~lf~~M~~~gv~pd~~ty~-~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~~~-W~a  333 (344)
                      ..+++.|+.++.+-.+..  |+.+--+ .+-+.....|+++.|.+.++...+.+-.--..+...|..+|+..|... |..
T Consensus       193 ~~~~d~A~~~l~kAlqa~--~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~  270 (389)
T COG2956         193 SSDVDRARELLKKALQAD--KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLN  270 (389)
T ss_pred             hhhHHHHHHHHHHHHhhC--ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence            455555555555544431  2222222 233445567899999999999998887777889999999999999854 777


Q ss_pred             HhcCcc
Q 047934          334 IFGKKT  339 (344)
Q Consensus       334 ll~~~~  339 (344)
                      +|.+|.
T Consensus       271 fL~~~~  276 (389)
T COG2956         271 FLRRAM  276 (389)
T ss_pred             HHHHHH
Confidence            776654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=97.56  E-value=0.0057  Score=68.41  Aligned_cols=120  Identities=16%  Similarity=0.082  Sum_probs=99.8

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCH
Q 047934          180 LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKL  259 (344)
Q Consensus       180 i~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~  259 (344)
                      ...+...|+.++|.++++.     .+.+...+..|-..|.+.|+.++|+..|+...+.. .-+...+..+...|...|+.
T Consensus       580 a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~  653 (1157)
T PRK11447        580 ANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDL  653 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCH
Confidence            4567888999999998872     34566778889999999999999999999998863 23678899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          260 EEAVEYCIEMLEAGHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       260 ~~A~~lf~~M~~~gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      ++|++.++...+.  .| +..++..+-.++...|+.++|.++++.+...
T Consensus       654 ~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        654 AAARAQLAKLPAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            9999999977653  34 4555666777888999999999999998875

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

Probab=97.53  E-value=0.00033  Score=66.23  Aligned_cols=147  Identities=20%  Similarity=0.147  Sum_probs=96.7

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH----HcCCHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLIPNAV-AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFC----KAQKFDD  226 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~~~-tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~----k~g~~e~  226 (344)
                      ...|++++|+++...-    -..... ..+..|.+.++++.|.+.++.|.+..  .| .+..-|..++.    ....+.+
T Consensus       113 ~~~~~~~~AL~~l~~~----~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e~~~~  185 (290)
T PF04733_consen  113 FHEGDYEEALKLLHKG----GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGEKYQD  185 (290)
T ss_dssp             CCCCHHHHHHCCCTTT----TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTTCCCH
T ss_pred             HHcCCHHHHHHHHHcc----CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCchhHHH
Confidence            3467788888777653    111222 35788888888888888888887653  23 33333444333    3346888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHH
Q 047934          227 AKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGV-EKAQSVIATLK  305 (344)
Q Consensus       227 A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~-e~a~~l~~~M~  305 (344)
                      |..+|++|.+. ..++..+.|.+..++...|++++|.+++.+..... .-|..|...++..+...|+. +.+.+++.++.
T Consensus       186 A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~  263 (290)
T PF04733_consen  186 AFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLK  263 (290)
T ss_dssp             HHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCH
T ss_pred             HHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            88888887654 56678888888888888888888888888765432 23566777777777777876 66777888777


Q ss_pred             HC
Q 047934          306 EK  307 (344)
Q Consensus       306 ~~  307 (344)
                      ..
T Consensus       264 ~~  265 (290)
T PF04733_consen  264 QS  265 (290)
T ss_dssp             HH
T ss_pred             Hh
Confidence            53

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

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

Probab=97.50  E-value=0.00031  Score=73.48  Aligned_cols=89  Identities=18%  Similarity=0.341  Sum_probs=55.4

Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Q 047934          195 LFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH  274 (344)
Q Consensus       195 lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv  274 (344)
                      ++..|+..|+.|+.+||..||.-||..|+++.|- +|.-|+-+....+...++.++.+...+++.+.+.           
T Consensus        12 fla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------   79 (1088)
T KOG4318|consen   12 FLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------   79 (1088)
T ss_pred             HHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------
Confidence            4445566666666666666666666666666666 6666666655555666666666666666655554           


Q ss_pred             CCCHHHHHHHHHHHHHcCCHH
Q 047934          275 SPNVTTFVGLVDGLCRERGVE  295 (344)
Q Consensus       275 ~pd~~ty~~lL~a~~~~G~~e  295 (344)
                      .|-..||..|+.+|+..||+.
T Consensus        80 ep~aDtyt~Ll~ayr~hGDli  100 (1088)
T KOG4318|consen   80 EPLADTYTNLLKAYRIHGDLI  100 (1088)
T ss_pred             CCchhHHHHHHHHHHhccchH
Confidence            555666666666666666543

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

Probab=97.40  E-value=0.0046  Score=60.88  Aligned_cols=112  Identities=16%  Similarity=0.178  Sum_probs=95.3

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAV-AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFR  232 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~-tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~  232 (344)
                      .++++.|+.+|+++.+..  |+.. .|...+...++..+|.++.++..+. .+-+....+.-...|.+.++.+.|+.+.+
T Consensus       182 t~~~~~ai~lle~L~~~~--pev~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k~~~~lAL~iAk  258 (395)
T PF09295_consen  182 TQRYDEAIELLEKLRERD--PEVAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSKKKYELALEIAK  258 (395)
T ss_pred             cccHHHHHHHHHHHHhcC--CcHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            457999999999999887  5555 4677777888999999999988854 34477888888888999999999999999


Q ss_pred             HHHHCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          233 KMQSNGIAPNAF-SYNLLIQGLYKCNKLEEAVEYCIEML  270 (344)
Q Consensus       233 ~M~~~gi~pd~~-tyn~LI~ay~k~g~~~~A~~lf~~M~  270 (344)
                      ++.+.  .|+.+ +|..|..+|.+.|+++.|+-.++.|-
T Consensus       259 ~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  259 KAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99875  56655 99999999999999999999988874

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

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

Probab=97.39  E-value=0.02  Score=56.40  Aligned_cols=175  Identities=13%  Similarity=0.082  Sum_probs=113.5

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCHHHHH---HHHHHcCCHHHHHHHHHHHH--------------------------
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPNAVAML---DGLCKDGLIQEAMKLFGLMR--------------------------  200 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~~~tli---~~~~k~g~~~~A~~lf~~M~--------------------------  200 (344)
                      ..+.+|++++|.+.+++....+..- ..+|.   ..+-+.|++++|++.|-.+-                          
T Consensus       499 ~~f~ngd~dka~~~ykeal~ndasc-~ealfniglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqa  577 (840)
T KOG2003|consen  499 IAFANGDLDKAAEFYKEALNNDASC-TEALFNIGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQA  577 (840)
T ss_pred             eeeecCcHHHHHHHHHHHHcCchHH-HHHHHHhcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHH
Confidence            3466899999999999988765431 22222   22445677777777665441                          


Q ss_pred             ------HcC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Q 047934          201 ------EKG-TIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG  273 (344)
Q Consensus       201 ------~~g-~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g  273 (344)
                            ... ++-|..+...|-+.|-+.|+-..|.+.+-+--+ -+.-+..|.-.|-.-|....-+++|+..|++..  =
T Consensus       578 ie~~~q~~slip~dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaa--l  654 (840)
T KOG2003|consen  578 IELLMQANSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--L  654 (840)
T ss_pred             HHHHHHhcccCCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--h
Confidence                  111 233445555555555555555555554432211 123344555556666666677777777777643  3


Q ss_pred             CCCCHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCChH
Q 047934          274 HSPNVTTFVGLVDGLC-RERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSS  329 (344)
Q Consensus       274 v~pd~~ty~~lL~a~~-~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~~  329 (344)
                      ++|+.+-|-.||..|. +.|++.+|.+++....++ +.-|......|++.+...|-.
T Consensus       655 iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl~  710 (840)
T KOG2003|consen  655 IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGLK  710 (840)
T ss_pred             cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccch
Confidence            6899999999888876 689999999999987654 677888888888887777753

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

Probab=97.37  E-value=0.02  Score=55.47  Aligned_cols=173  Identities=12%  Similarity=0.085  Sum_probs=101.6

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHH--HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHHcCCHH
Q 047934          155 EPPQEADEIFKKMKETGLIPNAV--AMLDGLCKDGLIQEAMKLFGLMREKGTIPEV-------VIYTAVVDGFCKAQKFD  225 (344)
Q Consensus       155 g~~~~A~~lf~~M~~~gi~p~~~--tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~-------~tyn~LI~ay~k~g~~e  225 (344)
                      |+++.|..-.+++.+.+-.+...  ....+|.+.|++.++..+...|.+.|.-.|.       .+|+.+++-....+..+
T Consensus       167 ~d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~  246 (400)
T COG3071         167 RDYPAARENVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSE  246 (400)
T ss_pred             CCchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccch
Confidence            34444544444444433222111  3567777777777777777777776654432       34555555444444444


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC------------------------------C
Q 047934          226 DAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH------------------------------S  275 (344)
Q Consensus       226 ~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv------------------------------~  275 (344)
                      .-...|+....+ .+-+...-.+++.-+.++|+.++|.++..+-.+++.                              .
T Consensus       247 gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~  325 (400)
T COG3071         247 GLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHP  325 (400)
T ss_pred             HHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCC
Confidence            444444444322 222344445566666666666666666555433221                              1


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCChHH
Q 047934          276 PNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSV  330 (344)
Q Consensus       276 pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~~~  330 (344)
                      -+...+.+|-.-|.+.+.+.+|.+.|+...+  ..|+..+|+.+-+.+.+.|...
T Consensus       326 ~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~  378 (400)
T COG3071         326 EDPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPE  378 (400)
T ss_pred             CChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChH
Confidence            2335577788888888999999999985444  5788888888888888877643

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

Probab=97.26  E-value=0.044  Score=49.67  Aligned_cols=185  Identities=11%  Similarity=0.038  Sum_probs=140.9

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A  227 (344)
                      .|...|++..|.+-+++..+.+-.  -.|..+-..|.+.|..+.|.+.|+......- -+-.+.|..=.-+|..|.+++|
T Consensus        44 ~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p-~~GdVLNNYG~FLC~qg~~~eA  122 (250)
T COG3063          44 GYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAP-NNGDVLNNYGAFLCAQGRPEEA  122 (250)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCC-CccchhhhhhHHHHhCCChHHH
Confidence            344578999999999998886522  1345688889999999999999998776532 2456677777778999999999


Q ss_pred             HHHHHHHHHCCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          228 KRIFRKMQSNGI-APNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       228 ~~vf~~M~~~gi-~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      .+.|++....-. .--..||..+.-|-.+.|+.+.|.+.|.+-.+..-. ...+...+.....+.|+.-.|+..++....
T Consensus       123 ~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~  201 (250)
T COG3063         123 MQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPARLYLERYQQ  201 (250)
T ss_pred             HHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHHHHHHHHHh
Confidence            999999887521 122468888888889999999999999998876322 345566777888889999999999999887


Q ss_pred             CCCcccHHHHHHHHhccCCCChHH----HHHHhcC
Q 047934          307 KGFLVNDKAVREFLDKKAPFSSSV----WEAIFGK  337 (344)
Q Consensus       307 ~Gi~p~~~~~~~Ll~~yak~g~~~----W~all~~  337 (344)
                      .+- ++....-..|+.-...|+..    |.+.|-+
T Consensus       202 ~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         202 RGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             ccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            766 77777766676666666543    6665543

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

Probab=97.26  E-value=0.0082  Score=56.43  Aligned_cols=144  Identities=14%  Similarity=0.155  Sum_probs=105.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047934          176 AVAMLDGLCKDGLIQEAMKLFGLMREKG-TIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLY  254 (344)
Q Consensus       176 ~~tli~~~~k~g~~~~A~~lf~~M~~~g-~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~  254 (344)
                      |..+|..+-+.+..+.|..+|...++.+ +..++++..++|..+ ..++.+.|.+||+...+. +.-+...|...|+.+.
T Consensus         4 ~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~-~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~   81 (280)
T PF05843_consen    4 WIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYY-CNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFLI   81 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHH-TCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHH
Confidence            6678888888888999999999988653 445566666666533 245667799999998875 5557888999999999


Q ss_pred             HcCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccC
Q 047934          255 KCNKLEEAVEYCIEMLEAGHSPN---VTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKA  324 (344)
Q Consensus       255 k~g~~~~A~~lf~~M~~~gv~pd---~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~ya  324 (344)
                      +.++.+.|..+|++.... +.++   ...|...|.-=.+.|+++.+.++...+.+.  -|+......+++-|.
T Consensus        82 ~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry~  151 (280)
T PF05843_consen   82 KLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRYS  151 (280)
T ss_dssp             HTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT-
T ss_pred             HhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHhh
Confidence            999999999999998765 2222   347888888888999999999999888874  444555666676654

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.24  E-value=0.018  Score=58.35  Aligned_cols=156  Identities=19%  Similarity=0.138  Sum_probs=115.4

Q ss_pred             CCCCCCHHHHHHHHHHHHH---C--CCCCCHH-----HHHHHHHHcCCHHHHHHHHHHHHHc---CCCC----CHHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKE---T--GLIPNAV-----AMLDGLCKDGLIQEAMKLFGLMREK---GTIP----EVVIYTA  213 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~---~--gi~p~~~-----tli~~~~k~g~~~~A~~lf~~M~~~---g~~p----d~~tyn~  213 (344)
                      |+..|++++|...+++..+   +  +..+...     .+...|+..+.+++|..++....+.   -+.+    -..+++.
T Consensus       293 y~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~n  372 (508)
T KOG1840|consen  293 YYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYAN  372 (508)
T ss_pred             HhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHH
Confidence            6778999999888886443   2  1111111     3677888899999999999865432   1222    2468899


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHC----CC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH----HcCC-CCC-HHH
Q 047934          214 VVDGFCKAQKFDDAKRIFRKMQSN----GI---APNAFSYNLLIQGLYKCNKLEEAVEYCIEML----EAGH-SPN-VTT  280 (344)
Q Consensus       214 LI~ay~k~g~~e~A~~vf~~M~~~----gi---~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~----~~gv-~pd-~~t  280 (344)
                      |=..|-+.|++++|+.+|+.....    +-   .-....++-|-..|.+.+...+|.++|.+-.    ..|. .|+ ..+
T Consensus       373 l~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~  452 (508)
T KOG1840|consen  373 LAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYT  452 (508)
T ss_pred             HHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHH
Confidence            999999999999999999987542    11   1124567788888999999999999988744    3343 233 467


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          281 FVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       281 y~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      |..|...|...|+++.|.++.+.+..
T Consensus       453 ~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  453 YLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            88999999999999999999998763

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.22  E-value=0.071  Score=50.36  Aligned_cols=148  Identities=14%  Similarity=0.012  Sum_probs=110.4

Q ss_pred             CCCHHHHHHHHHHHHHCC-CCCCH-----HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          154 SEPPQEADEIFKKMKETG-LIPNA-----VAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~g-i~p~~-----~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A  227 (344)
                      ++..+.++.-+.++..+. +.|+.     .-+-..|...|+.++|...|....+.. +-+...|+.+-..|...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            356788888888888643 33332     224446778899999999999887753 34678999999999999999999


Q ss_pred             HHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          228 KRIFRKMQSNGIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       228 ~~vf~~M~~~gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      ...|+...+.  .| +...|..+-.+|...|++++|++.|+...+.  .|+..........+...++.++|.+.+.....
T Consensus       118 ~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~  193 (296)
T PRK11189        118 YEAFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE  193 (296)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            9999999875  34 4678888888899999999999999998765  34433222222234456789999999976543

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.20  E-value=0.1  Score=49.33  Aligned_cols=165  Identities=12%  Similarity=-0.051  Sum_probs=91.2

Q ss_pred             CCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      ..|+.++|...|++..+.+-.  .-+..+-..|...|++++|.+.|+...+.. +-+..+|..+-.++...|++++|.+.
T Consensus        76 ~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~  154 (296)
T PRK11189         76 SLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDD  154 (296)
T ss_pred             HCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            356677777777776654311  012345566677777777777777766532 11355666666667777777777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-----------------------------CC------
Q 047934          231 FRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG-----------------------------HS------  275 (344)
Q Consensus       231 f~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g-----------------------------v~------  275 (344)
                      |+...+.  .|+..........+...++.++|.+.|.+.....                             +.      
T Consensus       155 ~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~~~~~~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~l~  232 (296)
T PRK11189        155 LLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKLDKEQWGWNIVEFYLGKISEETLMERLKAGATDNTELA  232 (296)
T ss_pred             HHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhCCccccHHHHHHHHccCCCHHHHHHHHHhcCCCcHHHH
Confidence            7776654  2332211111112223455666666664432110                             00      


Q ss_pred             C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHH
Q 047934          276 P-NVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFL  320 (344)
Q Consensus       276 p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll  320 (344)
                      | ...+|..+-..+...|+.++|...|+.....+..-..+.-.+++
T Consensus       233 ~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~e~~~~~~  278 (296)
T PRK11189        233 ERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFVEHRYALL  278 (296)
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHHHHHHHHH
Confidence            0 12345556666677888888888888877665443333333333

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

Probab=97.20  E-value=0.028  Score=53.71  Aligned_cols=151  Identities=14%  Similarity=0.154  Sum_probs=104.4

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCHHHHHH---HHHH----cCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcCC
Q 047934          152 PISEPPQEADEIFKKMKETGLIPNAVAMLD---GLCK----DGLIQEAMKLFGLMREKGTIPE-VVIYTAVVDGFCKAQK  223 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~~~tli~---~~~k----~g~~~~A~~lf~~M~~~g~~pd-~~tyn~LI~ay~k~g~  223 (344)
                      ...|++++|.+++++..+..  |+....+.   .+..    .+..+.+.+.+..  .....|+ ......+-..+...|+
T Consensus        54 ~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~  129 (355)
T cd05804          54 WIAGDLPKALALLEQLLDDY--PRDLLALKLHLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQ  129 (355)
T ss_pred             HHcCCHHHHHHHHHHHHHHC--CCcHHHHHHhHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCC
Confidence            34688999999999887653  33322211   2333    3444555555443  1122233 3444566678889999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCCH--HHHHHHHHHHHHcCCHHHHHHH
Q 047934          224 FDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH-SPNV--TTFVGLVDGLCRERGVEKAQSV  300 (344)
Q Consensus       224 ~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv-~pd~--~ty~~lL~a~~~~G~~e~a~~l  300 (344)
                      +++|+..+++..+.. ..+...+..+-..|...|++++|..++++.....- .++.  ..|..+...+...|+.++|..+
T Consensus       130 ~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~  208 (355)
T cd05804         130 YDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAI  208 (355)
T ss_pred             HHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHH
Confidence            999999999998864 33466788888899999999999999998776422 2333  3455677788899999999999


Q ss_pred             HHHHHHC
Q 047934          301 IATLKEK  307 (344)
Q Consensus       301 ~~~M~~~  307 (344)
                      ++.....
T Consensus       209 ~~~~~~~  215 (355)
T cd05804         209 YDTHIAP  215 (355)
T ss_pred             HHHHhcc
Confidence            9998543

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.

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

Probab=97.15  E-value=0.1  Score=50.57  Aligned_cols=161  Identities=11%  Similarity=0.107  Sum_probs=102.3

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCHHHH--HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETGLIPNAVAM--LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~p~~~tl--i~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      ..|++..|+++..+-.+.+-.|..+-+  ..+--+.|+.+.+-.+..+..+.--.++...+-+.-......|+.+.|+.-
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            368899999998888777777754433  344445677777777777766553334455555555555555666666555


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC------------------------------------
Q 047934          231 FRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH------------------------------------  274 (344)
Q Consensus       231 f~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv------------------------------------  274 (344)
                      .+++.+.+ ............+|.+.|.+.....+...|.+.|+                                    
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            55555443 22444555556666666666555555555544332                                    


Q ss_pred             -----CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHH
Q 047934          275 -----SPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDK  314 (344)
Q Consensus       275 -----~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~  314 (344)
                           +-+...-.+++.-+..+|+.++|.++..+-.++++.++..
T Consensus       255 ~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~  299 (400)
T COG3071         255 QPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC  299 (400)
T ss_pred             ccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH
Confidence                 2334445667777788899999999999998888888743

>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=97.13  E-value=0.015  Score=42.12  Aligned_cols=90  Identities=23%  Similarity=0.228  Sum_probs=43.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 047934          214 VVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERG  293 (344)
Q Consensus       214 LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~  293 (344)
                      +...+...|++++|..+|+...+.. ..+...+..+..+|...+++++|.++|+...... ..+..++..+...+...|+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~   83 (100)
T cd00189           6 LGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGK   83 (100)
T ss_pred             HHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHh
Confidence            3444444555555555555554431 1122444455555555555555555555544432 1122344445555555555


Q ss_pred             HHHHHHHHHHHH
Q 047934          294 VEKAQSVIATLK  305 (344)
Q Consensus       294 ~e~a~~l~~~M~  305 (344)
                      .++|...+....
T Consensus        84 ~~~a~~~~~~~~   95 (100)
T cd00189          84 YEEALEAYEKAL   95 (100)
T ss_pred             HHHHHHHHHHHH
Confidence            555555555443

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

Probab=97.11  E-value=0.023  Score=46.35  Aligned_cols=91  Identities=15%  Similarity=0.157  Sum_probs=50.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~  258 (344)
                      +...+.+.|+.++|.+.|+.....+ +.+...+..+-..|.+.|++++|..+|+...+.. ..+...|..+-..|...|+
T Consensus        23 ~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~  100 (135)
T TIGR02552        23 LAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALGE  100 (135)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCC
Confidence            3444555666666666666555432 2245555555666666666666666666554442 2234445555555666666


Q ss_pred             HHHHHHHHHHHHH
Q 047934          259 LEEAVEYCIEMLE  271 (344)
Q Consensus       259 ~~~A~~lf~~M~~  271 (344)
                      .++|...|+...+
T Consensus       101 ~~~A~~~~~~al~  113 (135)
T TIGR02552       101 PESALKALDLAIE  113 (135)
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666655554

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

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

Probab=97.06  E-value=0.021  Score=46.63  Aligned_cols=105  Identities=12%  Similarity=0.090  Sum_probs=85.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVD  286 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~  286 (344)
                      +......+...+...|++++|...|+.+...+ ..+...|..+-.+|.+.|++++|..++++..... ..+..++..+-.
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~   93 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAE   93 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHH
Confidence            34556677788889999999999999988764 3377888899999999999999999999877654 445677777788


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCcccHHH
Q 047934          287 GLCRERGVEKAQSVIATLKEKGFLVNDKA  315 (344)
Q Consensus       287 a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~  315 (344)
                      .|...|+.++|...++...+..  |+...
T Consensus        94 ~~~~~g~~~~A~~~~~~al~~~--p~~~~  120 (135)
T TIGR02552        94 CLLALGEPESALKALDLAIEIC--GENPE  120 (135)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhc--cccch
Confidence            8899999999999999888753  44443

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

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

Probab=97.04  E-value=0.036  Score=56.68  Aligned_cols=118  Identities=17%  Similarity=0.132  Sum_probs=86.3

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCC-CCCC-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETG-LIPN-AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~g-i~p~-~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A  227 (344)
                      -||..|++|-|+.-+++..+.. -.|+ .+-|-.++-..|++.+|.+.|+...... ..-....+.|-..|...|.+++|
T Consensus       295 iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A  373 (966)
T KOG4626|consen  295 IYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEA  373 (966)
T ss_pred             EEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHH
Confidence            3456899999999999887653 1222 2358888888899999999998876642 22456777888888888888888


Q ss_pred             HHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          228 KRIFRKMQSNGIAPN-AFSYNLLIQGLYKCNKLEEAVEYCIEML  270 (344)
Q Consensus       228 ~~vf~~M~~~gi~pd-~~tyn~LI~ay~k~g~~~~A~~lf~~M~  270 (344)
                      ..+|....+-  -|. ...+|.|-..|-+.|++++|+..+.+..
T Consensus       374 ~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal  415 (966)
T KOG4626|consen  374 TRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL  415 (966)
T ss_pred             HHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH
Confidence            8888776653  222 3456777777888888888887777654

>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=97.02  E-value=0.021  Score=41.43  Aligned_cols=94  Identities=24%  Similarity=0.238  Sum_probs=74.3

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 047934          177 VAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC  256 (344)
Q Consensus       177 ~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~  256 (344)
                      ..+...+...|++++|..+|+...+.. +.+...+..+-..+...+++++|.+.|+...... ..+..+|..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHH
Confidence            345667778899999999999887653 2344778888888899999999999999887754 22446888888899999


Q ss_pred             CCHHHHHHHHHHHHHc
Q 047934          257 NKLEEAVEYCIEMLEA  272 (344)
Q Consensus       257 g~~~~A~~lf~~M~~~  272 (344)
                      |+.++|.+.+.+....
T Consensus        82 ~~~~~a~~~~~~~~~~   97 (100)
T cd00189          82 GKYEEALEAYEKALEL   97 (100)
T ss_pred             HhHHHHHHHHHHHHcc
Confidence            9999999998877643

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=96.99  E-value=0.047  Score=45.94  Aligned_cols=93  Identities=11%  Similarity=-0.071  Sum_probs=69.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      ..-..+.+.|++++|...|....... +.+..+|..+-.++...|++++|...|+...+.. ..+...|..+-.++.+.|
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC
Confidence            45566677888888888888776653 3367777788888888888888888888887653 236677777777888888


Q ss_pred             CHHHHHHHHHHHHHc
Q 047934          258 KLEEAVEYCIEMLEA  272 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~  272 (344)
                      +.++|...|+.....
T Consensus       107 ~~~eAi~~~~~Al~~  121 (144)
T PRK15359        107 EPGLAREAFQTAIKM  121 (144)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            888888888877664

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

Probab=96.99  E-value=0.025  Score=57.80  Aligned_cols=174  Identities=13%  Similarity=0.009  Sum_probs=111.3

Q ss_pred             cCCCCCC-CCCHHHHHHHHHHHHHCCCCCCHH-HH-HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHH---HHHHHHH
Q 047934          147 PNRNEPI-SEPPQEADEIFKKMKETGLIPNAV-AM-LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTA---VVDGFCK  220 (344)
Q Consensus       147 ~~~~~~~-sg~~~~A~~lf~~M~~~gi~p~~~-tl-i~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~---LI~ay~k  220 (344)
                      +..+||. .++.+.|++-|++..+-+-.-.+. || =.-++....+|.|+..|.....    .|...||+   |-..|.|
T Consensus       426 a~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~----~~~rhYnAwYGlG~vy~K  501 (638)
T KOG1126|consen  426 ALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG----VDPRHYNAWYGLGTVYLK  501 (638)
T ss_pred             HhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc----CCchhhHHHHhhhhheec
Confidence            4556666 778999999999887655322232 33 3345556678888888876543    46667766   4456778


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          221 AQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSV  300 (344)
Q Consensus       221 ~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l  300 (344)
                      .++++.|+--|++..+-+ .-+.+....+-..+-+.|+.|+|+.++++.....-+ |..+---....+...++.++|.+.
T Consensus       502 qek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal~~  579 (638)
T KOG1126|consen  502 QEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYVEALQE  579 (638)
T ss_pred             cchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHHHH
Confidence            888888888888766542 224555666666777888888888888887654322 233322234444556788888888


Q ss_pred             HHHHHHCCCcccH-HHHHHHHhccCCCCh
Q 047934          301 IATLKEKGFLVND-KAVREFLDKKAPFSS  328 (344)
Q Consensus       301 ~~~M~~~Gi~p~~-~~~~~Ll~~yak~g~  328 (344)
                      ++++++.  .|+. .++..+-..|-+.|.
T Consensus       580 LEeLk~~--vP~es~v~~llgki~k~~~~  606 (638)
T KOG1126|consen  580 LEELKEL--VPQESSVFALLGKIYKRLGN  606 (638)
T ss_pred             HHHHHHh--CcchHHHHHHHHHHHHHHcc
Confidence            8888764  4443 444444455555554

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

Probab=96.97  E-value=0.0037  Score=59.14  Aligned_cols=130  Identities=17%  Similarity=0.138  Sum_probs=93.7

Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cC
Q 047934          182 GLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK----CN  257 (344)
Q Consensus       182 ~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k----~g  257 (344)
                      .+...|++++|+++++.-      -+.......+..|.+.++++.|.+.++.|.+..  .| .+-..|..++..    ..
T Consensus       111 i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e  181 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGE  181 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTT
T ss_pred             HHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCch
Confidence            344579999999988642      467888889999999999999999999998753  34 334444444443    34


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhc
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDK  322 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~  322 (344)
                      .+.+|..+|+++.+. ..++..+.+.+..++...|++++|.+++.+.....-. +..+...++..
T Consensus       182 ~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-~~d~LaNliv~  244 (290)
T PF04733_consen  182 KYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-DPDTLANLIVC  244 (290)
T ss_dssp             CCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-HHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-CHHHHHHHHHH
Confidence            689999999998664 5678899999999999999999999999997654322 33344444443

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.

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=96.97  E-value=0.031  Score=46.99  Aligned_cols=96  Identities=9%  Similarity=-0.115  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 047934          210 IYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLC  289 (344)
Q Consensus       210 tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~  289 (344)
                      .+..+-..+...|++++|...|+...... ..+...|..+-.++.+.|++++|...|++..... .-+..++..+-.++.
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            35556677889999999999999988763 2377889999999999999999999999998753 346788888888999


Q ss_pred             HcCCHHHHHHHHHHHHHC
Q 047934          290 RERGVEKAQSVIATLKEK  307 (344)
Q Consensus       290 ~~G~~e~a~~l~~~M~~~  307 (344)
                      ..|+.++|.+.+....+.
T Consensus       104 ~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        104 MMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            999999999999998775

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

Probab=96.97  E-value=0.055  Score=48.16  Aligned_cols=118  Identities=13%  Similarity=0.088  Sum_probs=66.6

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HHcCC--HHHHH
Q 047934          187 GLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGL-YKCNK--LEEAV  263 (344)
Q Consensus       187 g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay-~k~g~--~~~A~  263 (344)
                      ++.+++...+....+. -+.|...|..|-..|...|++++|...|++..+..- -+...|..+-.++ ...|+  .++|.
T Consensus        53 ~~~~~~i~~l~~~L~~-~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P-~~~~~~~~lA~aL~~~~g~~~~~~A~  130 (198)
T PRK10370         53 QTPEAQLQALQDKIRA-NPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRG-ENAELYAALATVLYYQAGQHMTPQTR  130 (198)
T ss_pred             hhHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCCCcHHHH
Confidence            3344444444443332 133566666666666667777777777766655431 1455555555543 45555  36666


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          264 EYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       264 ~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +++++..+..-. +..++..+-..+...|++++|...++.+.+.
T Consensus       131 ~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        131 EMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            666666654321 4455555666666667777777777666554

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

Probab=96.96  E-value=0.043  Score=50.44  Aligned_cols=179  Identities=12%  Similarity=0.062  Sum_probs=130.3

Q ss_pred             chhHHhhhhhcCCCCCCCCCcccccchhcccccCCCCCCCCCHHHHHHHHHHHHHCCCCCCH-H--HHHHHHHHcCCHHH
Q 047934          115 DENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGLIPNA-V--AMLDGLCKDGLIQE  191 (344)
Q Consensus       115 ~h~~~~k~gl~~~~~v~~~l~~~~~~~~~y~~~~~~~~~sg~~~~A~~lf~~M~~~gi~p~~-~--tli~~~~k~g~~~~  191 (344)
                      .++.+...+-.....++...+         .++...++..|+-+.+..+........-+ +. .  .......+.|++.+
T Consensus        49 ~~~a~~al~~~~~~~p~d~~i---------~~~a~a~~~~G~a~~~l~~~~~~~~~~~~-d~~ll~~~gk~~~~~g~~~~  118 (257)
T COG5010          49 TQGAAAALGAAVLRNPEDLSI---------AKLATALYLRGDADSSLAVLQKSAIAYPK-DRELLAAQGKNQIRNGNFGE  118 (257)
T ss_pred             hhHHHHHHHHHHhcCcchHHH---------HHHHHHHHhcccccchHHHHhhhhccCcc-cHHHHHHHHHHHHHhcchHH
Confidence            344555555554444433333         34455677788888887777765443222 21 1  25677778899999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          192 AMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       192 A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      |...|.+...- -++|..+|+.+=-+|.+.|+.++|+.-|.+..+.-. -+...+|.|--.|.-.|+.+.|..++..-..
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 AVSVLRKAARL-APTDWEAWNLLGAALDQLGRFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYL  196 (257)
T ss_pred             HHHHHHHHhcc-CCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHh
Confidence            99999987653 567999999999999999999999999999887532 2556778888888889999999999999887


Q ss_pred             cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          272 AGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       272 ~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      .+.. |...-..+...-...|++++|+.+...-..
T Consensus       197 ~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~~~e~~  230 (257)
T COG5010         197 SPAA-DSRVRQNLALVVGLQGDFREAEDIAVQELL  230 (257)
T ss_pred             CCCC-chHHHHHHHHHHhhcCChHHHHhhcccccc
Confidence            6543 455556677777889999999988775443

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

Probab=96.95  E-value=0.078  Score=44.39  Aligned_cols=116  Identities=13%  Similarity=0.077  Sum_probs=79.1

Q ss_pred             HcCCHHHHHHHHHHHHHcCCCCCHHHH---HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHHcCCH
Q 047934          185 KDGLIQEAMKLFGLMREKGTIPEVVIY---TAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNA--FSYNLLIQGLYKCNKL  259 (344)
Q Consensus       185 k~g~~~~A~~lf~~M~~~g~~pd~~ty---n~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~--~tyn~LI~ay~k~g~~  259 (344)
                      ..++...+...++.+.+..- -+....   =.+-..+...|++++|...|+........++.  ...-.|...+...|++
T Consensus        23 ~~~~~~~~~~~~~~l~~~~~-~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~  101 (145)
T PF09976_consen   23 QAGDPAKAEAAAEQLAKDYP-SSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQY  101 (145)
T ss_pred             HCCCHHHHHHHHHHHHHHCC-CChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            47778888888888877632 222222   22346677889999999999998887533322  2334466777888999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          260 EEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIAT  303 (344)
Q Consensus       260 ~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~  303 (344)
                      ++|+..++......  .....+...-+.|.+.|+.++|...|+.
T Consensus       102 d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  102 DEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999886643332  2344566677778889999999888875

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

Probab=96.94  E-value=0.065  Score=53.05  Aligned_cols=156  Identities=13%  Similarity=0.053  Sum_probs=128.6

Q ss_pred             CCCCCC-CCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Q 047934          148 NRNEPI-SEPPQEADEIFKKMKETG--LIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKF  224 (344)
Q Consensus       148 ~~~~~~-sg~~~~A~~lf~~M~~~g--i~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~  224 (344)
                      +.|||. .++.++|...|++...-+  ...-|+-|=.-|........|.+-++...+- .+.|-..|=.|=.+|.-.+..
T Consensus       336 IaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi-~p~DyRAWYGLGQaYeim~Mh  414 (559)
T KOG1155|consen  336 IANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDI-NPRDYRAWYGLGQAYEIMKMH  414 (559)
T ss_pred             ehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhc-CchhHHHHhhhhHHHHHhcch
Confidence            456666 568999999999988654  2223556778899999999999999988765 344788888999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          225 DDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       225 e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      .-|+-.|++...-. +-|...|.+|=++|.+.++.++|.+.|......|-. +...+..|-..|-+.++.++|.+.+..-
T Consensus       415 ~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d~~eAa~~yek~  492 (559)
T KOG1155|consen  415 FYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKDLNEAAQYYEKY  492 (559)
T ss_pred             HHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            99999999887642 347889999999999999999999999998877622 5578889999999999999998888865


Q ss_pred             HH
Q 047934          305 KE  306 (344)
Q Consensus       305 ~~  306 (344)
                      ++
T Consensus       493 v~  494 (559)
T KOG1155|consen  493 VE  494 (559)
T ss_pred             HH
Confidence            54

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

Probab=96.93  E-value=0.069  Score=49.44  Aligned_cols=121  Identities=23%  Similarity=0.193  Sum_probs=92.9

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----
Q 047934          180 LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK----  255 (344)
Q Consensus       180 i~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k----  255 (344)
                      ...|++.|++++|++..+...    ..+....|  +..+.+..+++.|++.+++|.+-.   +..|.+-|-.++.+    
T Consensus       115 a~i~~~~~~~deAl~~~~~~~----~lE~~Al~--VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~g  185 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGE----NLEAAALN--VQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATG  185 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccc----hHHHHHHH--HHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhcc
Confidence            456888999999999887621    12333333  333467778999999999998753   55677766666654    


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCc
Q 047934          256 CNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFL  310 (344)
Q Consensus       256 ~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~  310 (344)
                      .+.+.+|.-+|++|-++ ..|+..+.+....+|...|++++|..++++...+.-.
T Consensus       186 gek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~  239 (299)
T KOG3081|consen  186 GEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK  239 (299)
T ss_pred             chhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC
Confidence            45688999999999764 5789999999999999999999999999999877544

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

Probab=96.89  E-value=0.061  Score=59.36  Aligned_cols=169  Identities=15%  Similarity=0.113  Sum_probs=108.9

Q ss_pred             CCCHHHHHHHHHHHHHC-CCC------CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          154 SEPPQEADEIFKKMKET-GLI------PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDD  226 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~-gi~------p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~  226 (344)
                      -++++.|++++++.... +..      --|.++++.-...|.-+...++|++..+..  ---.+|..|...|.+.+.+++
T Consensus      1471 lsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~~L~~iy~k~ek~~~ 1548 (1710)
T KOG1070|consen 1471 LSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHLKLLGIYEKSEKNDE 1548 (1710)
T ss_pred             hhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHHHHHHHHHHhhcchh
Confidence            46788999998876642 111      026688888888888888889998887752  124567889999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          227 AKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN---VTTFVGLVDGLCRERGVEKAQSVIAT  303 (344)
Q Consensus       227 A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd---~~ty~~lL~a~~~~G~~e~a~~l~~~  303 (344)
                      |-++|+.|.++ +.-....|...++.+.+..+.++|.+++.+....  -|-   .....-....-.+.|+.++++.+|+.
T Consensus      1549 A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEg 1625 (1710)
T KOG1070|consen 1549 ADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEFKYGDAERGRTLFEG 1625 (1710)
T ss_pred             HHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHhhcCCchhhHHHHHH
Confidence            99999999775 2246778888888888888888888877765432  111   11111122222245566666666655


Q ss_pred             HHHCCCcccHHHHHHHHhccCCCCh
Q 047934          304 LKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       304 M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      +...-=+ -...|+.++++=.+.|+
T Consensus      1626 ll~ayPK-RtDlW~VYid~eik~~~ 1649 (1710)
T KOG1070|consen 1626 LLSAYPK-RTDLWSVYIDMEIKHGD 1649 (1710)
T ss_pred             HHhhCcc-chhHHHHHHHHHHccCC
Confidence            5543211 12345555555555554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=96.87  E-value=0.057  Score=57.09  Aligned_cols=125  Identities=14%  Similarity=0.180  Sum_probs=99.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIP-EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~p-d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      |-....+.|+.++|..+++...+.  .| +....-.+...+.+.+++++|+...++....... +......+-.++.+.|
T Consensus        92 La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~~a~~l~~~g  168 (694)
T PRK15179         92 VARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILLEAKSWDEIG  168 (694)
T ss_pred             HHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHhc
Confidence            455566788999999999887764  44 4566777888889999999999999998876322 4556667777888899


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +.++|.++|++.... ..-+..++..+-.++...|+.++|...|+...+.
T Consensus       169 ~~~~A~~~y~~~~~~-~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        169 QSEQADACFERLSRQ-HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             chHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999873 2334788888888889999999999999987654

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

Probab=96.86  E-value=0.014  Score=55.42  Aligned_cols=155  Identities=11%  Similarity=0.049  Sum_probs=104.8

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPNAVA-MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~~~t-li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      .|+.-|.+.+|.+-|..-.+.--.|+... |-.+|.+...++.|+.+|.+-.+. ++-|+....-+-+.+-..+..++|.
T Consensus       232 CylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~~~~~a~  310 (478)
T KOG1129|consen  232 CYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAMEQQEDAL  310 (478)
T ss_pred             HHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHHhHHHHH
Confidence            34446788888888887666554555443 567788888888888888776553 3334433455666667777788888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          229 RIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      ++++...+.. ..++....++-.+|.-.++.+-|+..++++...|+. +...|+.+--+|.-.+.++.+..-|......
T Consensus       311 ~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlst  387 (478)
T KOG1129|consen  311 QLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALST  387 (478)
T ss_pred             HHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhh
Confidence            8888776642 224455566666777778888888888888877765 5666776766777777777776666655443

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

Probab=96.75  E-value=0.025  Score=57.82  Aligned_cols=126  Identities=20%  Similarity=0.109  Sum_probs=88.4

Q ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH---H
Q 047934          175 NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIP-EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLL---I  250 (344)
Q Consensus       175 ~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~p-d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~L---I  250 (344)
                      +|.++=+.|+..++.+.|++.|+...+.  .| .+++|+-+=.-+.-...+|.|...|+.....    |...||++   -
T Consensus       423 sWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~----~~rhYnAwYGlG  496 (638)
T KOG1126|consen  423 SWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV----DPRHYNAWYGLG  496 (638)
T ss_pred             HHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC----CchhhHHHHhhh
Confidence            5777778888888888888888766553  33 5677777777777777888888888765543    66666653   4


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          251 QGLYKCNKLEEAVEYCIEMLEAGHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       251 ~ay~k~g~~~~A~~lf~~M~~~gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      ..|.|.++++.|+-.|++..+-  -| +.+....+-..+-+.|+.|+|.+++++.....
T Consensus       497 ~vy~Kqek~e~Ae~~fqkA~~I--NP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld  553 (638)
T KOG1126|consen  497 TVYLKQEKLEFAEFHFQKAVEI--NPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD  553 (638)
T ss_pred             hheeccchhhHHHHHHHhhhcC--CccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC
Confidence            4567788888888777765543  33 45555666666677788888888888776554

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

Probab=96.74  E-value=0.14  Score=50.99  Aligned_cols=108  Identities=18%  Similarity=0.156  Sum_probs=53.9

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCC--H--HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcCCHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPN--A--VAMLDGLCKDGLIQEAMKLFGLMREKGTIPE-VVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~--~--~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd-~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      .|++++|+..++.+...  .|+  |  ......+.+.++.++|.+.++.+...  .|+ ....-.+-.+|.+.|+..+|.
T Consensus       319 ~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai  394 (484)
T COG4783         319 AGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAI  394 (484)
T ss_pred             hcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHH
Confidence            45555555555554432  111  1  13455555555555555555555543  233 333444445555555555555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          229 RIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYC  266 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf  266 (344)
                      .+++...... +-|...|..|-.+|...|+..++..-.
T Consensus       395 ~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~  431 (484)
T COG4783         395 RILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLAR  431 (484)
T ss_pred             HHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHH
Confidence            5555554432 224555555555555555555554433

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

Probab=96.72  E-value=0.09  Score=51.97  Aligned_cols=111  Identities=14%  Similarity=0.084  Sum_probs=91.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH-cC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK-CN  257 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k-~g  257 (344)
                      |-..|-+.|+-.+|++.+-+--+ -++.+..|..-|-.-|....-++++...|++..-  +.|+..-|..||..|.+ .|
T Consensus       598 l~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsg  674 (840)
T KOG2003|consen  598 LADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSG  674 (840)
T ss_pred             HHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcc
Confidence            45566677888888887755333 3677899999999999999999999999987543  68999999999988875 79


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERG  293 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~  293 (344)
                      ++..|++++.....+ +.-|.....-|++.|...|.
T Consensus       675 nyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  675 NYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             cHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            999999999987654 66688888899999988884

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=96.71  E-value=0.072  Score=41.87  Aligned_cols=93  Identities=14%  Similarity=0.034  Sum_probs=39.2

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHH
Q 047934          180 LDGLCKDGLIQEAMKLFGLMREKGT--IPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIA--PNAFSYNLLIQGLYK  255 (344)
Q Consensus       180 i~~~~k~g~~~~A~~lf~~M~~~g~--~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~--pd~~tyn~LI~ay~k  255 (344)
                      ...+.+.|++++|.+.|..+.+..-  ......+-.+..++.+.|++++|...|+.+....-.  .....+..+..++.+
T Consensus         9 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~   88 (119)
T TIGR02795         9 ALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQE   88 (119)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHH
Confidence            3344444555555555554443210  011223333444444555555555555544432100  112334444444444


Q ss_pred             cCCHHHHHHHHHHHHHc
Q 047934          256 CNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       256 ~g~~~~A~~lf~~M~~~  272 (344)
                      .|+.++|.+.++++.+.
T Consensus        89 ~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        89 LGDKEKAKATLQQVIKR  105 (119)
T ss_pred             hCChHHHHHHHHHHHHH
Confidence            45555555555444443

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.

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

Probab=96.70  E-value=0.074  Score=49.22  Aligned_cols=148  Identities=20%  Similarity=0.133  Sum_probs=106.8

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH----HcCCHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIPNAVAM-LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFC----KAQKFD  225 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p~~~tl-i~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~----k~g~~e  225 (344)
                      +...|++++|++....    +..-+..+| +..+.+..+++.|.+.++.|.+..   +..|.+-|-.++.    ..+.+.
T Consensus       118 ~~~~~~~deAl~~~~~----~~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~ggek~q  190 (299)
T KOG3081|consen  118 YMHDGDFDEALKALHL----GENLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGGEKIQ  190 (299)
T ss_pred             hhcCCChHHHHHHHhc----cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccchhhh
Confidence            4446789999888876    222123333 555667889999999999998763   5566665555554    446799


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHH
Q 047934          226 DAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERG-VEKAQSVIATL  304 (344)
Q Consensus       226 ~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~-~e~a~~l~~~M  304 (344)
                      +|.-+|++|.++ ..|+..+.+-+..++...|++++|..++++.....-. +..|...+|.+--..|. .+-..+.+..+
T Consensus       191 dAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QL  268 (299)
T KOG3081|consen  191 DAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERNLSQL  268 (299)
T ss_pred             hHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHH
Confidence            999999999764 6789999999999999999999999999998876433 56666555555555564 44556666666


Q ss_pred             HHC
Q 047934          305 KEK  307 (344)
Q Consensus       305 ~~~  307 (344)
                      +..
T Consensus       269 k~~  271 (299)
T KOG3081|consen  269 KLS  271 (299)
T ss_pred             Hhc
Confidence            653

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

Probab=96.66  E-value=0.1  Score=43.66  Aligned_cols=113  Identities=13%  Similarity=0.129  Sum_probs=85.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHH-----HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHHcCCHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAV-----AMLDGLCKDGLIQEAMKLFGLMREKGTIPEV--VIYTAVVDGFCKAQKFDD  226 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~-----tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~--~tyn~LI~ay~k~g~~e~  226 (344)
                      .++.+.+...++.+....-.-.+.     .+-..+...|++++|...|++.....-.++.  ...-.|-..+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            677889999999988864331122     2557788899999999999999987632322  234456778889999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          227 AKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIE  268 (344)
Q Consensus       227 A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~  268 (344)
                      |+.+++.....  ......+..+=+.|.+.|+.++|...|+.
T Consensus       104 Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999775433  33455677888899999999999999875

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

Probab=96.56  E-value=0.17  Score=45.00  Aligned_cols=126  Identities=11%  Similarity=0.111  Sum_probs=95.6

Q ss_pred             CCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHHcCC--HHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDG-FCKAQK--FDDAK  228 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~a-y~k~g~--~e~A~  228 (344)
                      .++.+++...+....+.+-.  --|..+-..|...|++++|...|+...+.. +-+...+..+-.+ |...|+  .++|.
T Consensus        52 ~~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~  130 (198)
T PRK10370         52 QQTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTR  130 (198)
T ss_pred             chhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHH
Confidence            45677888777776654311  124567788999999999999999888764 2367777777776 467777  59999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 047934          229 RIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFV  282 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~  282 (344)
                      +++++..+..-. +...+..+-.++.+.|++++|...|+++.+.. .|+..-+.
T Consensus       131 ~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~~r~~  182 (198)
T PRK10370        131 EMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDLN-SPRVNRTQ  182 (198)
T ss_pred             HHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCccHHH
Confidence            999999887433 67888999999999999999999999998763 34444443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=96.53  E-value=0.09  Score=41.31  Aligned_cols=100  Identities=15%  Similarity=0.098  Sum_probs=73.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCCHHHHHHH
Q 047934          209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGI--APNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG--HSPNVTTFVGL  284 (344)
Q Consensus       209 ~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi--~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g--v~pd~~ty~~l  284 (344)
                      .++-.+...+.+.|++++|...|..+....-  ......+..+..+|.+.|++++|.+.|+.+....  .......+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            3455666777888999999999998876521  1123466678888899999999999999887642  11224556677


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          285 VDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       285 L~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      ..++...|+.++|.+.+.++.+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            777888999999999999888763

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=96.49  E-value=0.12  Score=52.62  Aligned_cols=157  Identities=15%  Similarity=0.149  Sum_probs=111.2

Q ss_pred             CCCCCCHHHHHHHHHHHHHC-----CC-CCCHHH----HHHHHHHcCCHHHHHHHHHHHHHc-----C--CCCCHHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKET-----GL-IPNAVA----MLDGLCKDGLIQEAMKLFGLMREK-----G--TIPEVVIYTA  213 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~-----gi-~p~~~t----li~~~~k~g~~~~A~~lf~~M~~~-----g--~~pd~~tyn~  213 (344)
                      |...|+++.|+.+|....+.     |. .|...+    +-..|...+++.+|..+|+.+..-     |  .+.-..+++.
T Consensus       209 y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~n  288 (508)
T KOG1840|consen  209 YAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNN  288 (508)
T ss_pred             HHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            33478899999999976653     21 233334    345777889999999999988632     2  1223456677


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHH---C--CC-CCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCC----HH
Q 047934          214 VVDGFCKAQKFDDAKRIFRKMQS---N--GI-APNAF-SYNLLIQGLYKCNKLEEAVEYCIEMLEA---GHSPN----VT  279 (344)
Q Consensus       214 LI~ay~k~g~~e~A~~vf~~M~~---~--gi-~pd~~-tyn~LI~ay~k~g~~~~A~~lf~~M~~~---gv~pd----~~  279 (344)
                      |-..|.+.|++++|+..++...+   +  |. .+.+. -++.+...|+..+.+++|..+++...+-   -..++    ..
T Consensus       289 La~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~  368 (508)
T KOG1840|consen  289 LAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAK  368 (508)
T ss_pred             HHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHH
Confidence            77789999999998887776533   1  21 22333 3567788888899999999998875431   12222    35


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          280 TFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       280 ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +++-|-..|-+.|++++|.+++......
T Consensus       369 ~~~nl~~l~~~~gk~~ea~~~~k~ai~~  396 (508)
T KOG1840|consen  369 IYANLAELYLKMGKYKEAEELYKKAIQI  396 (508)
T ss_pred             HHHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence            6888999999999999999999987643

>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=96.45  E-value=0.04  Score=45.55  Aligned_cols=95  Identities=12%  Similarity=0.170  Sum_probs=49.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVD  286 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~  286 (344)
                      |..++.++|-++++.|+++....+.+..-  |+..+.         -...+.         --....+.|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~---------~~~~~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNG---------KKKEGD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCC---------ccccCc---------cCCCCCCCCCHHHHHHHHH
Confidence            45667777777777777777777665431  111110         000000         0011234566666666666


Q ss_pred             HHHHcCCHHHHHHHHHHHHH-CCCcccHHHHHHHHh
Q 047934          287 GLCRERGVEKAQSVIATLKE-KGFLVNDKAVREFLD  321 (344)
Q Consensus       287 a~~~~G~~e~a~~l~~~M~~-~Gi~p~~~~~~~Ll~  321 (344)
                      +|+..|++..|.++++...+ .++..+..+|..|++
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            66666666666666665443 355555555555553

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

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

Probab=96.41  E-value=0.009  Score=45.14  Aligned_cols=81  Identities=21%  Similarity=0.230  Sum_probs=39.9

Q ss_pred             cCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          221 AQKFDDAKRIFRKMQSNGIA-PNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQS  299 (344)
Q Consensus       221 ~g~~e~A~~vf~~M~~~gi~-pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~  299 (344)
                      .|+++.|..+|+++.+..-. ++...|-.+-.+|.+.|++++|.++++. ...+. .+....-.+-.+|.+.|++++|.+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            35566666666666554221 1233344456666666666666666655 11111 112222233455556666666666


Q ss_pred             HHHH
Q 047934          300 VIAT  303 (344)
Q Consensus       300 l~~~  303 (344)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6653

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

Probab=96.40  E-value=0.2  Score=49.89  Aligned_cols=146  Identities=14%  Similarity=0.157  Sum_probs=89.5

Q ss_pred             CCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHHcCCHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGL--IPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEV-VIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi--~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~-~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      .+++..|..||++...-+.  .|-|.-.+..=.++..+.+|..+|+.....  -|-+ ..|=..+-|=-..|++..|+++
T Consensus        86 q~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi~gaRqi  163 (677)
T KOG1915|consen   86 QKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNIAGARQI  163 (677)
T ss_pred             HHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhcccHHHHHH
Confidence            3578889999998776542  223444566666777777777777765543  1222 2333344444556667777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          231 FRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       231 f~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      |+.-.+.  +|+...|.+.|..=.+-..++.|..++++..-.  .|++.+|---..-=.+.|.+..++.++....
T Consensus       164 ferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAi  234 (677)
T KOG1915|consen  164 FERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAI  234 (677)
T ss_pred             HHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            7665543  667777777777766667777777777666543  3666666555555555666666666655544

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=96.40  E-value=0.21  Score=52.95  Aligned_cols=115  Identities=15%  Similarity=0.167  Sum_probs=96.0

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHH----HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAV----AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKR  229 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~----tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~  229 (344)
                      .|.+++|+++++...+.  .|+..    .+..++.+.+++++|+..++......- -+......+-.++.+.|++++|..
T Consensus        99 ~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p-~~~~~~~~~a~~l~~~g~~~~A~~  175 (694)
T PRK15179         99 AHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGS-SSAREILLEAKSWDEIGQSEQADA  175 (694)
T ss_pred             cCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCC-CCHHHHHHHHHHHHHhcchHHHHH
Confidence            68999999999998864  56544    588999999999999999999887632 256667777888889999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      +|++....+ .-+..+|..+-.++-+.|+.++|...|++..+.
T Consensus       176 ~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        176 CFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999842 234788888888999999999999999998764

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

Probab=96.37  E-value=0.22  Score=55.18  Aligned_cols=172  Identities=12%  Similarity=0.117  Sum_probs=133.1

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPN-AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFR  232 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~-~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~  232 (344)
                      -|.-+...++|++..+---.-. ..+|...|.+.+..++|-++|+.|.++ +.-...+|...++.+.+..+-+.|..++.
T Consensus      1510 yG~eesl~kVFeRAcqycd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~ 1588 (1710)
T KOG1070|consen 1510 YGTEESLKKVFERACQYCDAYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLK 1588 (1710)
T ss_pred             hCcHHHHHHHHHHHHHhcchHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHH
Confidence            3566777888888776432111 236899999999999999999999876 33577899999999999999999999998


Q ss_pred             HHHHCCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 047934          233 KMQSNGIAPN---AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGF  309 (344)
Q Consensus       233 ~M~~~gi~pd---~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi  309 (344)
                      +..+.  -|-   +....-.+..-.++|+.+.+..+|+.....- .--...|+..|+.=.+.|+.+.++.+|+.....++
T Consensus      1589 rAL~~--lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l 1665 (1710)
T KOG1070|consen 1589 RALKS--LPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKL 1665 (1710)
T ss_pred             HHHhh--cchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCC
Confidence            87664  222   3334455555668999999999999988652 22467899999999999999999999999999988


Q ss_pred             cccH--HHHHHHHhccCCCChH
Q 047934          310 LVND--KAVREFLDKKAPFSSS  329 (344)
Q Consensus       310 ~p~~--~~~~~Ll~~yak~g~~  329 (344)
                      .+-.  ..|..+++.=-..|+.
T Consensus      1666 ~~kkmKfffKkwLeyEk~~Gde 1687 (1710)
T KOG1070|consen 1666 SIKKMKFFFKKWLEYEKSHGDE 1687 (1710)
T ss_pred             ChhHhHHHHHHHHHHHHhcCch
Confidence            7763  5677777766565553

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

Probab=96.35  E-value=0.41  Score=47.63  Aligned_cols=199  Identities=11%  Similarity=0.044  Sum_probs=142.8

Q ss_pred             hHHhhhhhcCCCCCCCCCcccccchhcccccCCCCCCCCCHHHHHHHHHHHHHCCC-CC-CHH-----------------
Q 047934          117 NFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKETGL-IP-NAV-----------------  177 (344)
Q Consensus       117 ~~~~k~gl~~~~~v~~~l~~~~~~~~~y~~~~~~~~~sg~~~~A~~lf~~M~~~gi-~p-~~~-----------------  177 (344)
                      ++..+.-+....|+.++-+.+....        ..|...++++|+.+|+++...+- .. +..                 
T Consensus       246 ~~~k~e~l~~~gf~~~~~i~~~~A~--------~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~  317 (559)
T KOG1155|consen  246 ALQKKERLSSVGFPNSMYIKTQIAA--------ASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSY  317 (559)
T ss_pred             HHHHHHHHHhccCCccHHHHHHHHH--------HHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHH
Confidence            3344445555557766666443333        33456789999999999998641 11 110                 


Q ss_pred             -----------------HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 047934          178 -----------------AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIA  240 (344)
Q Consensus       178 -----------------tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~  240 (344)
                                       .+-+-|+-.+..++|..+|+...+.+- -....|+.+=.-|....+...|.+-++...+-. +
T Consensus       318 LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp-~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p  395 (559)
T KOG1155|consen  318 LAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNP-KYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-P  395 (559)
T ss_pred             HHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCc-chhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-c
Confidence                             134445556788899999998877532 245677777788999999999999999887643 3


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHH
Q 047934          241 PNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFL  320 (344)
Q Consensus       241 pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll  320 (344)
                      .|-..|-.|=.+|.-.+...-|+-.|++-.... +-|...|.+|-.+|.+.++.++|.+-|......|-. +...+..|-
T Consensus       396 ~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~La  473 (559)
T KOG1155|consen  396 RDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLA  473 (559)
T ss_pred             hhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHH
Confidence            477889999999999999999999998876542 348999999999999999999999999998876643 444454554


Q ss_pred             hccCCCC
Q 047934          321 DKKAPFS  327 (344)
Q Consensus       321 ~~yak~g  327 (344)
                      +.|-+.+
T Consensus       474 kLye~l~  480 (559)
T KOG1155|consen  474 KLYEELK  480 (559)
T ss_pred             HHHHHHH
Confidence            4444433

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.33  E-value=0.51  Score=43.38  Aligned_cols=155  Identities=10%  Similarity=0.017  Sum_probs=99.8

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCCHH-----HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--c--
Q 047934          151 EPISEPPQEADEIFKKMKETGLIPNAV-----AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCK--A--  221 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p~~~-----tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k--~--  221 (344)
                      .+..|++++|.+.|+++....-...+.     -+..+|.+.++.++|...|+.+.+..-.....-|.-.+.+.+.  .  
T Consensus        42 ~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~  121 (243)
T PRK10866         42 KLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDD  121 (243)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcch
Confidence            355799999999999998854333333     2567788999999999999999876433333444444444431  0  


Q ss_pred             -------------CC---HHHHHHHHHHHHHC----CCCCCHHHH------------HHHHHHHHHcCCHHHHHHHHHHH
Q 047934          222 -------------QK---FDDAKRIFRKMQSN----GIAPNAFSY------------NLLIQGLYKCNKLEEAVEYCIEM  269 (344)
Q Consensus       222 -------------g~---~e~A~~vf~~M~~~----gi~pd~~ty------------n~LI~ay~k~g~~~~A~~lf~~M  269 (344)
                                   .+   ..+|...|+.+.+.    ...++....            -.+..-|.+.|.+..|..-|+.+
T Consensus       122 ~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v  201 (243)
T PRK10866        122 SALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRVEQM  201 (243)
T ss_pred             hhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHH
Confidence                         11   23455555555443    111111111            12344477888888888888888


Q ss_pred             HHc--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          270 LEA--GHSPNVTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       270 ~~~--gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      .+.  +..........++.+|...|..++|..+...+.
T Consensus       202 ~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        202 LRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            764  445566667778888888888888887776554

>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=96.33  E-value=0.057  Score=44.61  Aligned_cols=82  Identities=12%  Similarity=0.135  Sum_probs=54.0

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH---------------HcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCC
Q 047934          177 VAMLDGLCKDGLIQEAMKLFGLMR---------------EKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSN-GIA  240 (344)
Q Consensus       177 ~tli~~~~k~g~~~~A~~lf~~M~---------------~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~-gi~  240 (344)
                      .++|.++++.|+.+....+.+..=               .....|+..+..+++.+|+..+++..|.++.+...+. +++
T Consensus         6 ~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~   85 (126)
T PF12921_consen    6 CNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIP   85 (126)
T ss_pred             HHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCC
Confidence            478999999999999998886441               0123456666666666666666666666666666553 566


Q ss_pred             CCHHHHHHHHHHHHHcCC
Q 047934          241 PNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       241 pd~~tyn~LI~ay~k~g~  258 (344)
                      .+..+|..|+.-+...-.
T Consensus        86 i~~~~W~~Ll~W~~v~s~  103 (126)
T PF12921_consen   86 IPKEFWRRLLEWAYVLSS  103 (126)
T ss_pred             CCHHHHHHHHHHHHHhcC
Confidence            666666666665554433

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

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=96.31  E-value=0.31  Score=43.79  Aligned_cols=149  Identities=15%  Similarity=0.145  Sum_probs=103.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCC-C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCH-HHHHHHHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTI-P-EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIA-PNA-FSYNLLIQGL  253 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~-p-d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~-pd~-~tyn~LI~ay  253 (344)
                      .+...+...|++++|...|+.+....-. | ...++..+-.+|...|++++|...++.+.+..-. +.. .++..+-.+|
T Consensus        38 ~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~  117 (235)
T TIGR03302        38 EEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSN  117 (235)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHH
Confidence            4667788999999999999998765311 1 1246777888999999999999999999875321 111 2444444455


Q ss_pred             HHc--------CCHHHHHHHHHHHHHcCCCCCH-HHH-----------------HHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          254 YKC--------NKLEEAVEYCIEMLEAGHSPNV-TTF-----------------VGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       254 ~k~--------g~~~~A~~lf~~M~~~gv~pd~-~ty-----------------~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      .+.        |+.++|.+.|+.+....  |+. ..+                 ..+-..+.+.|+.++|...+....+.
T Consensus       118 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~  195 (235)
T TIGR03302       118 YNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVEN  195 (235)
T ss_pred             HHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            544        77899999999988652  322 111                 12345567889999999999998865


Q ss_pred             C--CcccHHHHHHHHhccCCCCh
Q 047934          308 G--FLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       308 G--i~p~~~~~~~Ll~~yak~g~  328 (344)
                      .  -......+..+...|.+.|.
T Consensus       196 ~p~~~~~~~a~~~l~~~~~~lg~  218 (235)
T TIGR03302       196 YPDTPATEEALARLVEAYLKLGL  218 (235)
T ss_pred             CCCCcchHHHHHHHHHHHHHcCC
Confidence            2  22234566677777777665

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).

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

Probab=96.29  E-value=0.11  Score=55.51  Aligned_cols=156  Identities=15%  Similarity=0.158  Sum_probs=114.6

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHH--HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAV--AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~--tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      .+..+.|+++|......+-+--|.  -+=-.++..|++.+|..+|.+.++... -+..+|-.+-.+|..+|.+..|.++|
T Consensus       625 kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmY  703 (1018)
T KOG2002|consen  625 KKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMY  703 (1018)
T ss_pred             HHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHH
Confidence            346889999998877655331132  255667889999999999999988744 23456778889999999999999999


Q ss_pred             HHHHHC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH--H----------------HcC
Q 047934          232 RKMQSN-GIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGL--C----------------RER  292 (344)
Q Consensus       232 ~~M~~~-gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~--~----------------~~G  292 (344)
                      +...+. .-.-+....+.|-.++.++|.+.+|.+........-..-..+-||..+-..  +                ..+
T Consensus       704 e~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~  783 (1018)
T KOG2002|consen  704 ENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVK  783 (1018)
T ss_pred             HHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            987664 434567788999999999999999998877766654444455566443332  1                134


Q ss_pred             CHHHHHHHHHHHHHCCCc
Q 047934          293 GVEKAQSVIATLKEKGFL  310 (344)
Q Consensus       293 ~~e~a~~l~~~M~~~Gi~  310 (344)
                      .++.|.++|.+|...+-.
T Consensus       784 ~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  784 ELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHHHHHHHhcCCC
Confidence            578899999999887543

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

Probab=96.29  E-value=0.34  Score=48.27  Aligned_cols=152  Identities=17%  Similarity=0.063  Sum_probs=116.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHH
Q 047934          176 AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN-AFSYNLLIQGLY  254 (344)
Q Consensus       176 ~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd-~~tyn~LI~ay~  254 (344)
                      +.-.-..+...|..++|+..+..+.+. .+-|++......+.+.+.++..+|.+.++.+...  .|+ ...+-.+-.+|.
T Consensus       309 ~YG~A~~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all  385 (484)
T COG4783         309 QYGRALQTYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALL  385 (484)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHH
Confidence            334455666788999999999998765 4457777888899999999999999999999886  555 667778889999


Q ss_pred             HcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCcccHHHHHHHHhccCCCChHHH
Q 047934          255 KCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK-GFLVNDKAVREFLDKKAPFSSSVW  331 (344)
Q Consensus       255 k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~-Gi~p~~~~~~~Ll~~yak~g~~~W  331 (344)
                      +.|+.++|..++++.... .+-|...|..|-.+|...|+..++..-..++... |-.-....+...-..-.+.|...|
T Consensus       386 ~~g~~~eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~G~~~~A~~~l~~A~~~~~~~~~~~  462 (484)
T COG4783         386 KGGKPQEAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAGRLEQAIIFLMRASQQVKLGFPDW  462 (484)
T ss_pred             hcCChHHHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhccCCcHHH
Confidence            999999999999988765 3558899999999999999998888877776543 322233333333344445555554

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

Probab=96.23  E-value=0.32  Score=44.20  Aligned_cols=128  Identities=17%  Similarity=0.017  Sum_probs=103.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~  258 (344)
                      |-.+|...|+...|..-+++..+.. +-+..+|.++-..|-+.|..+.|.+-|++.....- -+-.+.|..=.-+|..|.
T Consensus        41 Lal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p-~~GdVLNNYG~FLC~qg~  118 (250)
T COG3063          41 LALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAP-NNGDVLNNYGAFLCAQGR  118 (250)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCC-CccchhhhhhHHHHhCCC
Confidence            6778999999999999999988763 33567889999999999999999999999876521 245667777777889999


Q ss_pred             HHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          259 LEEAVEYCIEMLEAGHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       259 ~~~A~~lf~~M~~~gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      +++|...|++-...-.-+ -..||..+.-+-.+.|..+.|++.+..-.+..
T Consensus       119 ~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d  169 (250)
T COG3063         119 PEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD  169 (250)
T ss_pred             hHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC
Confidence            999999999988753222 24577777777779999999999999887763

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

Probab=96.23  E-value=0.035  Score=59.09  Aligned_cols=132  Identities=10%  Similarity=0.081  Sum_probs=104.9

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          187 GLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYC  266 (344)
Q Consensus       187 g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf  266 (344)
                      +..++|+++|....+.. +-|.+.-|-+=-.++.+|++.+|..||.+..+.... +..+|-.+-.+|..+|++..|+++|
T Consensus       626 k~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~-~~dv~lNlah~~~e~~qy~~AIqmY  703 (1018)
T KOG2002|consen  626 KHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSD-FEDVWLNLAHCYVEQGQYRLAIQMY  703 (1018)
T ss_pred             HHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHHhh-CCceeeeHHHHHHHHHHHHHHHHHH
Confidence            35678999998877653 347777788888899999999999999999987432 4568999999999999999999999


Q ss_pred             HHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHH
Q 047934          267 IEMLEA-GHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFL  320 (344)
Q Consensus       267 ~~M~~~-gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll  320 (344)
                      +..... .-.-+......|-+++-..|.+.+|.+..-........-....||..+
T Consensus       704 e~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~  758 (1018)
T KOG2002|consen  704 ENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLAL  758 (1018)
T ss_pred             HHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHH
Confidence            986654 445577788889999999999999999888777665554455555544

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

Probab=96.21  E-value=0.48  Score=48.48  Aligned_cols=150  Identities=14%  Similarity=0.061  Sum_probs=109.1

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHc----C----------CCCCH--HHHHHHHHHHHHc
Q 047934          158 QEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREK----G----------TIPEV--VIYTAVVDGFCKA  221 (344)
Q Consensus       158 ~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~----g----------~~pd~--~tyn~LI~ay~k~  221 (344)
                      ..+...+..+..+|+++-.+.|-..|......+-..+++..+...    +          -.|..  +++.-|-..|-..
T Consensus       128 ~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~  207 (517)
T PF12569_consen  128 ERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYL  207 (517)
T ss_pred             HHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHh
Confidence            355666677788887654445555556555555556666655432    1          12444  3445556678899


Q ss_pred             CCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          222 QKFDDAKRIFRKMQSNGIAPN-AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSV  300 (344)
Q Consensus       222 g~~e~A~~vf~~M~~~gi~pd-~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l  300 (344)
                      |++++|+.+.+...++  .|+ +..|.+--..|-+.|++++|.+.++........ |...=+-....+.++|++++|.++
T Consensus       208 g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~  284 (517)
T PF12569_consen  208 GDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKT  284 (517)
T ss_pred             CCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999988886  455 567888888888999999999999998876433 666666777888899999999999


Q ss_pred             HHHHHHCCCc
Q 047934          301 IATLKEKGFL  310 (344)
Q Consensus       301 ~~~M~~~Gi~  310 (344)
                      +...-+.+..
T Consensus       285 ~~~Ftr~~~~  294 (517)
T PF12569_consen  285 ASLFTREDVD  294 (517)
T ss_pred             HHhhcCCCCC
Confidence            9998887753

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 [], [].

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

Probab=96.19  E-value=0.11  Score=48.69  Aligned_cols=128  Identities=16%  Similarity=0.124  Sum_probs=91.8

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHH---H-HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          156 PPQEADEIFKKMKETGLIPNAVA---M-LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p~~~t---l-i~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      .++.|+.||.+..+.+.. ++..   . .--|...++.+.|..+|+...+. +..+...|..-|+.+.+.++.+.|+.+|
T Consensus        16 g~~~aR~vF~~a~~~~~~-~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~~~~d~~~aR~lf   93 (280)
T PF05843_consen   16 GIEAARKVFKRARKDKRC-TYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFLIKLNDINNARALF   93 (280)
T ss_dssp             HHHHHHHHHHHHHCCCCS--THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             ChHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHhCcHHHHHHHH
Confidence            388999999999865432 2322   1 11233356777799999998876 6678899999999999999999999999


Q ss_pred             HHHHHCCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 047934          232 RKMQSNGIAPN---AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGL  288 (344)
Q Consensus       232 ~~M~~~gi~pd---~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~  288 (344)
                      ++.... +..+   ...|...|+-=.+.|+++.+.++..++.+.  .|+...+..+++-|
T Consensus        94 er~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   94 ERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT
T ss_pred             HHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHh
Confidence            998765 3222   259999999999999999999999998875  34444444454444

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.

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

Probab=96.16  E-value=0.17  Score=49.19  Aligned_cols=104  Identities=14%  Similarity=0.052  Sum_probs=73.5

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          181 DGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLE  260 (344)
Q Consensus       181 ~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~  260 (344)
                      ..+...|++++|+++|.+..+.. +-+...|..+-.+|.+.|++++|+..++...+.. .-+...|..+-.+|...|+++
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            44556788888888888877653 2356777777788888888888888888887653 225667777778888888888


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 047934          261 EAVEYCIEMLEAGHSPNVTTFVGLVDGL  288 (344)
Q Consensus       261 ~A~~lf~~M~~~gv~pd~~ty~~lL~a~  288 (344)
                      +|...|++....  .|+...+...+..|
T Consensus        88 eA~~~~~~al~l--~P~~~~~~~~l~~~  113 (356)
T PLN03088         88 TAKAALEKGASL--APGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            888888887764  35544444444333

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

Probab=96.13  E-value=0.29  Score=50.38  Aligned_cols=148  Identities=14%  Similarity=0.133  Sum_probs=118.9

Q ss_pred             CCCHHHHHHHHHHHHHCCC-CCC-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGL-IPN-AVAMLDGLCKDGLIQEAMKLFGLMREKGTIP-EVVIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi-~p~-~~tli~~~~k~g~~~~A~~lf~~M~~~g~~p-d~~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      -|++++|++.++....-.- .++ .+-|-..|...|.+++|..+|....+-  .| =...+|.|-..|-..|++++|...
T Consensus       333 ~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~  410 (966)
T KOG4626|consen  333 KGSVTEAVDCYNKALRLCPNHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMC  410 (966)
T ss_pred             ccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHH
Confidence            4889999999988765321 111 235788999999999999999877653  33 346789999999999999999999


Q ss_pred             HHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          231 FRKMQSNGIAPN-AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN-VTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       231 f~~M~~~gi~pd-~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd-~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +++..+  |+|+ ...|+.|=..|-..|+++.|...+.+...-  .|. ...++.|-+.|-..|++.+|..-+++..+.
T Consensus       411 Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~--nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLkl  485 (966)
T KOG4626|consen  411 YKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI--NPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKL  485 (966)
T ss_pred             HHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc--CcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHcc
Confidence            998775  5777 468899999999999999999998877654  343 456788999999999999999999988765

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

Probab=96.04  E-value=0.056  Score=50.52  Aligned_cols=101  Identities=16%  Similarity=0.090  Sum_probs=70.9

Q ss_pred             CCCHHHHHHHHHHHHHc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC----------------HHHHH
Q 047934          205 IPEVVIYTAVVDGFCKA-----QKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK----------------LEEAV  263 (344)
Q Consensus       205 ~pd~~tyn~LI~ay~k~-----g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~----------------~~~A~  263 (344)
                      +-|-..|-+.+..+...     +.++-....++.|.+-|++.|..+|+.||..+-|..-                -+-++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            45777887777777655     5677778888899999999999999999998876432                13466


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHH
Q 047934          264 EYCIEMLEAGHSPNVTTFVGLVDGLCRERG-VEKAQSVIATLK  305 (344)
Q Consensus       264 ~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~-~e~a~~l~~~M~  305 (344)
                      +++++|...|+.||..+-..||.++++.+. ..+...+.--|.
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence            777777777777777777777777766664 233344444443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.03  E-value=0.39  Score=41.34  Aligned_cols=81  Identities=12%  Similarity=-0.001  Sum_probs=58.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPE--VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC  256 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd--~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~  256 (344)
                      +-..|...|++++|...|++..+..-.+.  ...+..+-..|.+.|++++|...+++..... .-+...+..+..+|...
T Consensus        41 lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~  119 (172)
T PRK02603         41 DGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVIYHKR  119 (172)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHc
Confidence            55567778999999999998876533222  4678888888889999999999998887642 12455666666777776


Q ss_pred             CCHH
Q 047934          257 NKLE  260 (344)
Q Consensus       257 g~~~  260 (344)
                      |+..
T Consensus       120 g~~~  123 (172)
T PRK02603        120 GEKA  123 (172)
T ss_pred             CChH
Confidence            6643

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.01  E-value=0.034  Score=39.78  Aligned_cols=50  Identities=24%  Similarity=0.257  Sum_probs=21.1

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          221 AQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       221 ~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      .|++++|.++|+.+....-. +...+-.+..+|.+.|++++|.++++++..
T Consensus         4 ~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             ccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34444444444444333111 333444444444444444444444444443

...

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

Probab=95.99  E-value=0.051  Score=40.93  Aligned_cols=81  Identities=21%  Similarity=0.268  Sum_probs=45.8

Q ss_pred             cCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          186 DGLIQEAMKLFGLMREKGTI-PEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVE  264 (344)
Q Consensus       186 ~g~~~~A~~lf~~M~~~g~~-pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~  264 (344)
                      .|+++.|+.+|+.+.+..-. ++...+-.+-.+|.+.|++++|..+++. .+.+. .+....-.+-.+|.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            45667777777777655321 1333444466777777777777777766 21111 122333344666677777777777


Q ss_pred             HHHH
Q 047934          265 YCIE  268 (344)
Q Consensus       265 lf~~  268 (344)
                      +|++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            7654

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

Probab=95.97  E-value=0.49  Score=45.10  Aligned_cols=114  Identities=11%  Similarity=-0.004  Sum_probs=80.3

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHH----HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          155 EPPQEADEIFKKMKETGLIPNAV----AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       155 g~~~~A~~lf~~M~~~gi~p~~~----tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      +..+.+.+.+..  .....|+..    .+-..+...|++++|.+.++...+.. +.+...+..+-..|...|++++|...
T Consensus        94 ~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~  170 (355)
T cd05804          94 GMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAF  170 (355)
T ss_pred             cCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHH
Confidence            445556655554  122233322    23346778899999999999888763 33567788888889999999999999


Q ss_pred             HHHHHHCCC-CCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          231 FRKMQSNGI-APNA--FSYNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       231 f~~M~~~gi-~pd~--~tyn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      +++.....- .++.  ..|..+...+...|+.++|..++++...
T Consensus       171 l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         171 MESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             HHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            988776422 2232  3466778888899999999999998754

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.

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

Probab=95.97  E-value=0.19  Score=48.90  Aligned_cols=101  Identities=13%  Similarity=0.072  Sum_probs=80.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          216 DGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVE  295 (344)
Q Consensus       216 ~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e  295 (344)
                      ..+...|++++|...|++..+..- -+...|..+-.+|.+.|++++|+..+++..... ..+...|..+-.+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            345678999999999999988632 257788889999999999999999999998753 225677888888999999999


Q ss_pred             HHHHHHHHHHHCCCcccHHHHHHHH
Q 047934          296 KAQSVIATLKEKGFLVNDKAVREFL  320 (344)
Q Consensus       296 ~a~~l~~~M~~~Gi~p~~~~~~~Ll  320 (344)
                      +|...|+...+.  .|+...+..++
T Consensus        88 eA~~~~~~al~l--~P~~~~~~~~l  110 (356)
T PLN03088         88 TAKAALEKGASL--APGDSRFTKLI  110 (356)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHH
Confidence            999999998874  44444444444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.96  E-value=0.24  Score=47.00  Aligned_cols=148  Identities=21%  Similarity=0.272  Sum_probs=95.9

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHcC---------CHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHHHHcCC-
Q 047934          157 PQEADEIFKKMKETGLIPNAVAMLDGLCKDG---------LIQEAMKLFGLMREKG---TIPEVVIYTAVVDGFCKAQK-  223 (344)
Q Consensus       157 ~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g---------~~~~A~~lf~~M~~~g---~~pd~~tyn~LI~ay~k~g~-  223 (344)
                      +++...+++.|.+.|..-+..+.+.++.-..         ....|.++|+.|++..   ..++..++.+||.+  ...+ 
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            6678888999999888766555555444333         3557899999999875   35677888888776  3333 


Q ss_pred             ---HHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHHcCC---HHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHcCC--
Q 047934          224 ---FDDAKRIFRKMQSNGIAPNAF-SYNLLIQGLYKCNK---LEEAVEYCIEMLEAGHSPNVTTFVGLVDGL-CRERG--  293 (344)
Q Consensus       224 ---~e~A~~vf~~M~~~gi~pd~~-tyn~LI~ay~k~g~---~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~-~~~G~--  293 (344)
                         .+.++.+|+.+.+.|+..+-. -+-+-|-+++....   ...+.++++.+++.|+++....|..+--.. ...+.  
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               367888899998887765433 34444444443222   447888999999999988777776442222 22222  


Q ss_pred             -HHHHHHHHHHHHH
Q 047934          294 -VEKAQSVIATLKE  306 (344)
Q Consensus       294 -~e~a~~l~~~M~~  306 (344)
                       .+...++.+.+.+
T Consensus       236 ~~~~i~ev~~~L~~  249 (297)
T PF13170_consen  236 IVEEIKEVIDELKE  249 (297)
T ss_pred             HHHHHHHHHHHHhh
Confidence             3444555555554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=95.84  E-value=0.29  Score=41.90  Aligned_cols=90  Identities=10%  Similarity=-0.093  Sum_probs=59.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIP--EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLY-  254 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~p--d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~-  254 (344)
                      .+...+...|++++|+..|+......-.+  ...++..+-..|...|+.++|+..++...... +....++..+...|. 
T Consensus        40 ~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~i~~~  118 (168)
T CHL00033         40 RDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAVICHY  118 (168)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHH
Confidence            35556667788888888888776543222  23577777788888888888888888876542 223445556655665 


Q ss_pred             ------HcCCHHHHHHHHHH
Q 047934          255 ------KCNKLEEAVEYCIE  268 (344)
Q Consensus       255 ------k~g~~~~A~~lf~~  268 (344)
                            +.|++++|+..+++
T Consensus       119 ~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        119 RGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             hhHHHHHcccHHHHHHHHHH
Confidence                  56666655555544

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

Probab=95.81  E-value=0.08  Score=44.16  Aligned_cols=58  Identities=17%  Similarity=0.175  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          246 YNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       246 yn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      ...++..+...|++++|..+...+.... +-|...|..+|.+|...|+..+|.+++..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            3334444444444444444444444331 123444444444444444444444444443

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

>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=95.80  E-value=0.042  Score=39.28  Aligned_cols=64  Identities=17%  Similarity=0.327  Sum_probs=41.1

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 047934          184 CKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLI  250 (344)
Q Consensus       184 ~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI  250 (344)
                      .+.|++++|+++|+.+.+.. +-+...+-.+..+|.+.|++++|..+++.+...  .|+...|..++
T Consensus         2 l~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l~   65 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQLL   65 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHHH
Confidence            45677777777777776552 226666667777777777777777777777665  45544444443

...

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

Probab=95.80  E-value=1.1  Score=47.87  Aligned_cols=169  Identities=11%  Similarity=0.084  Sum_probs=120.5

Q ss_pred             CCCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETG---LIPNAVAMLDGLCKDGLIQEAMKLFGLMREKG-TIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~g---i~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g-~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      +.|++++|.+++.+....+   ..| +.+|-..|-+.|+.++++..+  |.... .+-|...|-.+-+...+.|.++.|.
T Consensus       151 arg~~eeA~~i~~EvIkqdp~~~~a-y~tL~~IyEqrGd~eK~l~~~--llAAHL~p~d~e~W~~ladls~~~~~i~qA~  227 (895)
T KOG2076|consen  151 ARGDLEEAEEILMEVIKQDPRNPIA-YYTLGEIYEQRGDIEKALNFW--LLAAHLNPKDYELWKRLADLSEQLGNINQAR  227 (895)
T ss_pred             HhCCHHHHHHHHHHHHHhCccchhh-HHHHHHHHHHcccHHHHHHHH--HHHHhcCCCChHHHHHHHHHHHhcccHHHHH
Confidence            3589999999999988754   222 668999999999999998755  33333 4447788889999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHH----HHHHHHHcCCHHHHHHHHHHH
Q 047934          229 RIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVG----LVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~----lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      -.|.+..... .++...+---...|-+.|+...|++.|.+|....-..|..-+..    ++..+...++-+.|.+.++..
T Consensus       228 ~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~  306 (895)
T KOG2076|consen  228 YCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGA  306 (895)
T ss_pred             HHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            9999988763 22333334456678899999999999999988643333333333    455566677778888888877


Q ss_pred             HHC-CCcccHHHHHHHHhccCC
Q 047934          305 KEK-GFLVNDKAVREFLDKKAP  325 (344)
Q Consensus       305 ~~~-Gi~p~~~~~~~Ll~~yak  325 (344)
                      ... +-..+...++.+..+|.+
T Consensus       307 ~s~~~~~~~~ed~ni~ael~l~  328 (895)
T KOG2076|consen  307 LSKEKDEASLEDLNILAELFLK  328 (895)
T ss_pred             HhhccccccccHHHHHHHHHHH
Confidence            663 333344455555544443

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

Probab=95.77  E-value=0.14  Score=47.85  Aligned_cols=112  Identities=13%  Similarity=0.204  Sum_probs=80.8

Q ss_pred             HHHHHHHHHH-CCCCCCHHHHHHHHHHc-----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH---------
Q 047934          160 ADEIFKKMKE-TGLIPNAVAMLDGLCKD-----GLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKF---------  224 (344)
Q Consensus       160 A~~lf~~M~~-~gi~p~~~tli~~~~k~-----g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~---------  224 (344)
                      .++.|....- ...+-+.-+++..+...     +.++-....++.|.+-|+.-|..+|+.||+.+-|-.-.         
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            3455665552 11122333555555543     46777777788999999999999999999999887532         


Q ss_pred             -------HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHH
Q 047934          225 -------DDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKL-EEAVEYCIEMLE  271 (344)
Q Consensus       225 -------e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~-~~A~~lf~~M~~  271 (344)
                             +=+.+++++|...|+-||..+--.||.++++.+.. .+..++...|-+
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmPk  187 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMPK  187 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhhh
Confidence                   23788999999999999999999999999988764 344455555543

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

Probab=95.65  E-value=0.35  Score=48.95  Aligned_cols=137  Identities=11%  Similarity=0.153  Sum_probs=101.6

Q ss_pred             HHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          189 IQEAMKLFGLMREKG-TIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAP-NAFSYNLLIQGLYKCNKLEEAVEYC  266 (344)
Q Consensus       189 ~~~A~~lf~~M~~~g-~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf  266 (344)
                      .+.....++.+...- ..| +.+|..+|+..-+..-+..|+.+|.+..+.+..+ +++.+++++.-||. ++..-|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~-tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDL-TLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCC-ceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHH
Confidence            334444555554432 333 4678888888888888999999999999988877 88899999997775 7788899999


Q ss_pred             HHHHHcCCCCCHHHH-HHHHHHHHHcCCHHHHHHHHHHHHHCCCccc--HHHHHHHHhccCCCChH
Q 047934          267 IEMLEAGHSPNVTTF-VGLVDGLCRERGVEKAQSVIATLKEKGFLVN--DKAVREFLDKKAPFSSS  329 (344)
Q Consensus       267 ~~M~~~gv~pd~~ty-~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~--~~~~~~Ll~~yak~g~~  329 (344)
                      +--...  -+|...| ...++-+...++-..++-+|+.....++.++  ..+|..+|+-=+..|+.
T Consensus       425 eLGLkk--f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL  488 (656)
T KOG1914|consen  425 ELGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDL  488 (656)
T ss_pred             HHHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccH
Confidence            864432  1244443 4677777888998999999999998876665  47888888877777763

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

Probab=95.63  E-value=0.21  Score=47.74  Aligned_cols=129  Identities=13%  Similarity=0.077  Sum_probs=105.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHHc
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYN-LLIQGLYKC  256 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn-~LI~ay~k~  256 (344)
                      -|-.+|.+.|.+.+|...|+.-.+.  .|-+.||--|-.+|.+....+.|+.+|.+-.+.  -|-.+||- -+...+-..
T Consensus       228 Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  228 QMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHH
Confidence            3788999999999999999876665  467788889999999999999999999987664  45555554 566667778


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcc
Q 047934          257 NKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLV  311 (344)
Q Consensus       257 g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p  311 (344)
                      ++.++|.+++.+..+.. ..++....++-.+|.-.++.|.|...+..+...|+.-
T Consensus       304 ~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~s  357 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQS  357 (478)
T ss_pred             HhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCC
Confidence            99999999999987753 3366677777788888899999999999999999873

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=95.51  E-value=0.97  Score=36.97  Aligned_cols=102  Identities=17%  Similarity=0.205  Sum_probs=56.3

Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHH
Q 047934          182 GLCKDGLIQEAMKLFGLMREKGTIPE--VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN----AFSYNLLIQGLYK  255 (344)
Q Consensus       182 ~~~k~g~~~~A~~lf~~M~~~g~~pd--~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd----~~tyn~LI~ay~k  255 (344)
                      ++-..|+.++|..+|+.-...|....  ...+-.+-..|...|++++|..+|+......  |+    ......+-.++..
T Consensus        10 a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen   10 AHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHH
Confidence            34456677777777777666665443  2344455556666677777777777665541  22    1222223335556


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 047934          256 CNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLC  289 (344)
Q Consensus       256 ~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~  289 (344)
                      .|+.++|++.+-.....    +...|.--|..|+
T Consensus        88 ~gr~~eAl~~~l~~la~----~~~~y~ra~~~ya  117 (120)
T PF12688_consen   88 LGRPKEALEWLLEALAE----TLPRYRRAIRFYA  117 (120)
T ss_pred             CCCHHHHHHHHHHHHHH----HHHHHHHHHHHHH
Confidence            67777777666554432    3334554444443

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

Probab=95.41  E-value=0.24  Score=50.22  Aligned_cols=167  Identities=16%  Similarity=0.112  Sum_probs=118.0

Q ss_pred             CCCHHHHHHHHHHHHH--CCCCCCHHHHHHH----------------------------------HHHcCCHHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKE--TGLIPNAVAMLDG----------------------------------LCKDGLIQEAMKLFG  197 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~--~gi~p~~~tli~~----------------------------------~~k~g~~~~A~~lf~  197 (344)
                      .|+..+|++.|...-.  .-.-|-|..+=..                                  |.+.+..+.|.++|.
T Consensus       325 i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~  404 (611)
T KOG1173|consen  325 IGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFK  404 (611)
T ss_pred             hcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHH
Confidence            5789999999987543  3345556532222                                  333456666666665


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          198 LMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSN--GIA----PNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       198 ~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~--gi~----pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      +.... .+-|+.+.+-+=-..-..+.+.+|...|+.....  .+.    .-..+++.|=.+|-+.+..++|+..|++-..
T Consensus       405 ~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~  483 (611)
T KOG1173|consen  405 QALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALL  483 (611)
T ss_pred             HHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHH
Confidence            54432 2335666666666666678889999998877632  111    1344678888899999999999999999876


Q ss_pred             cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccC
Q 047934          272 AGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKA  324 (344)
Q Consensus       272 ~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~ya  324 (344)
                      .. .-|..|+.++--.|...|+++.|.+.|....  .+.|+..+...++..+.
T Consensus       484 l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  484 LS-PKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLAI  533 (611)
T ss_pred             cC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHHH
Confidence            53 4488899999999999999999999998744  56888877777776544

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

Probab=95.38  E-value=0.19  Score=41.80  Aligned_cols=74  Identities=16%  Similarity=0.251  Sum_probs=55.9

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----cCCCCCHHHHH
Q 047934          208 VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE-----AGHSPNVTTFV  282 (344)
Q Consensus       208 ~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~-----~gv~pd~~ty~  282 (344)
                      ..+...++..+...|++++|..+...+.... +-|...|..+|.+|...|+..+|.++|+++..     .|+.|+..|-.
T Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   62 LDALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            3455777888889999999999999998763 34788999999999999999999999998753     49999887744

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

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.28  E-value=1.1  Score=36.85  Aligned_cols=111  Identities=14%  Similarity=0.115  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 047934          176 AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK  255 (344)
Q Consensus       176 ~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k  255 (344)
                      ...+|..+...+....+..+++.+...+. .+...+|.+|..|++... ++....+..   .   .+......++..|-+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~---~---~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN---K---SNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh---c---cccCCHHHHHHHHHH
Confidence            45688888888999999999999888874 688899999999998743 444444442   1   234445558888888


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHH
Q 047934          256 CNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRE-RGVEKAQSVIAT  303 (344)
Q Consensus       256 ~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~-G~~e~a~~l~~~  303 (344)
                      .+.++++.-++.++...         ...+..+... ++.+.|.+++..
T Consensus        82 ~~l~~~~~~l~~k~~~~---------~~Al~~~l~~~~d~~~a~~~~~~  121 (140)
T smart00299       82 AKLYEEAVELYKKDGNF---------KDAIVTLIEHLGNYEKAIEYFVK  121 (140)
T ss_pred             cCcHHHHHHHHHhhcCH---------HHHHHHHHHcccCHHHHHHHHHh
Confidence            88888888888776432         2233333333 677777776664

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

Probab=95.27  E-value=0.51  Score=47.25  Aligned_cols=146  Identities=18%  Similarity=0.150  Sum_probs=96.5

Q ss_pred             CCHHHHHHHHHHHHHCCCCCC-HHHHHHHH---HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          155 EPPQEADEIFKKMKETGLIPN-AVAMLDGL---CKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       155 g~~~~A~~lf~~M~~~gi~p~-~~tli~~~---~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      +++++|..=|++..+-  .|+ ..+.|.-|   .+.+.+++++..|++.+++ ++--+.+||-.-..+...++++.|.+.
T Consensus       408 ~q~e~A~aDF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~  484 (606)
T KOG0547|consen  408 QQYEEAIADFQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQ  484 (606)
T ss_pred             HHHHHHHHHHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHH
Confidence            3555666666555432  222 11333333   3567889999999987765 666778888888889999999999999


Q ss_pred             HHHHHHCC-----CCCCHHHH--HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          231 FRKMQSNG-----IAPNAFSY--NLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIAT  303 (344)
Q Consensus       231 f~~M~~~g-----i~pd~~ty--n~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~  303 (344)
                      |+...+..     +-.+...+  -+++-.- -.+++..|..++.+-.+.. .-....|..|-..-...|++++|.++|+.
T Consensus       485 YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAielFEk  562 (606)
T KOG0547|consen  485 YDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIELFEK  562 (606)
T ss_pred             HHHHHhhccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            98876641     11111111  1222111 2378888888888776642 11456788888888999999999999997


Q ss_pred             HH
Q 047934          304 LK  305 (344)
Q Consensus       304 M~  305 (344)
                      -.
T Consensus       563 sa  564 (606)
T KOG0547|consen  563 SA  564 (606)
T ss_pred             HH
Confidence            54

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=95.25  E-value=0.87  Score=38.86  Aligned_cols=98  Identities=12%  Similarity=0.046  Sum_probs=72.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAP--NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGL  284 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~p--d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~l  284 (344)
                      -...|..+...+...|++++|...|+........+  ...+|..+-..|...|+.++|++.+++..... .....++..+
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~l  112 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHH
Confidence            34566777777888999999999999987653222  23578889999999999999999999887642 2234455555


Q ss_pred             HHHHH-------HcCCHHHHHHHHHHHH
Q 047934          285 VDGLC-------RERGVEKAQSVIATLK  305 (344)
Q Consensus       285 L~a~~-------~~G~~e~a~~l~~~M~  305 (344)
                      ...+.       ..|++++|...+++..
T Consensus       113 a~i~~~~~~~~~~~g~~~~A~~~~~~a~  140 (168)
T CHL00033        113 AVICHYRGEQAIEQGDSEIAEAWFDQAA  140 (168)
T ss_pred             HHHHHHhhHHHHHcccHHHHHHHHHHHH
Confidence            55565       7788887777766543

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

Probab=95.25  E-value=1.6  Score=46.66  Aligned_cols=132  Identities=12%  Similarity=0.133  Sum_probs=85.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH--HcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAVAMLDGLC--KDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~--k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      ++++.+|......+..+--.....-++.++.  +.|+.++|..+++.....+.. |..|..++-.+|-+.+..++|..+|
T Consensus        22 ~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Y  100 (932)
T KOG2053|consen   22 SSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLY  100 (932)
T ss_pred             hHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHH
Confidence            5678888888887665432212334555554  678888888888776655444 8888888999999999999999998


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 047934          232 RKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLC  289 (344)
Q Consensus       232 ~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~  289 (344)
                      ++....  -|+..-...+..+|++.+.+.+-.+.--+|-+ .+.-+...|-++++-..
T Consensus       101 e~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slil  155 (932)
T KOG2053|consen  101 ERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLIL  155 (932)
T ss_pred             HHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHH
Confidence            887654  56666667777778877766543333333322 12223444444444443

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

Probab=95.21  E-value=1.4  Score=44.66  Aligned_cols=165  Identities=14%  Similarity=0.141  Sum_probs=120.9

Q ss_pred             HHHHHHHHHHHHHC-CCCCC--HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047934          157 PQEADEIFKKMKET-GLIPN--AVAMLDGLCKDGLIQEAMKLFGLMREKGTIP-EVVIYTAVVDGFCKAQKFDDAKRIFR  232 (344)
Q Consensus       157 ~~~A~~lf~~M~~~-gi~p~--~~tli~~~~k~g~~~~A~~lf~~M~~~g~~p-d~~tyn~LI~ay~k~g~~e~A~~vf~  232 (344)
                      .+....+++++... .+.|+  +..+|...-+..-++.|..+|....+.+..+ ++++++++|.-||. ++.+-|.++|+
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            44444555554432 33343  4468888888999999999999999988666 89999999998875 56788999998


Q ss_pred             HHHHCCCCCCHHHH-HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--
Q 047934          233 KMQSNGIAPNAFSY-NLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN--VTTFVGLVDGLCRERGVEKAQSVIATLKEK--  307 (344)
Q Consensus       233 ~M~~~gi~pd~~ty-n~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd--~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~--  307 (344)
                      .=.+.  -+|...| ...++-+...++-..|..+|++....++.||  ...|..+|+-=...|++..+.++-+.+...  
T Consensus       426 LGLkk--f~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 LGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFP  503 (656)
T ss_pred             HHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcc
Confidence            64332  1244444 5788888899999999999999998877666  467999999999999999999988876543  


Q ss_pred             -CCcccHHHHHHHHhccC
Q 047934          308 -GFLVNDKAVREFLDKKA  324 (344)
Q Consensus       308 -Gi~p~~~~~~~Ll~~ya  324 (344)
                       ...+....-..+++.|.
T Consensus       504 ~~qe~~~~~~~~~v~RY~  521 (656)
T KOG1914|consen  504 ADQEYEGNETALFVDRYG  521 (656)
T ss_pred             hhhcCCCChHHHHHHHHh
Confidence             13333334445555544

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=95.17  E-value=0.88  Score=39.06  Aligned_cols=86  Identities=12%  Similarity=0.086  Sum_probs=65.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN--AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGL  284 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd--~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~l  284 (344)
                      ....|..+-..|...|++++|...|++..+....+.  ...|..+-..|.+.|++++|...+.+..... .-+...+..+
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            455677788888899999999999999876533222  4678899999999999999999999987742 1245556666


Q ss_pred             HHHHHHcCC
Q 047934          285 VDGLCRERG  293 (344)
Q Consensus       285 L~a~~~~G~  293 (344)
                      ...+...|+
T Consensus       113 g~~~~~~g~  121 (172)
T PRK02603        113 AVIYHKRGE  121 (172)
T ss_pred             HHHHHHcCC
Confidence            666666665

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

Probab=94.97  E-value=1.3  Score=44.34  Aligned_cols=181  Identities=14%  Similarity=0.141  Sum_probs=124.6

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPN----AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKR  229 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~  229 (344)
                      +..+-.|..||++....  -|-    |.-.+..=-..|++.-|.++|+.-.+  ..|+...|++.|+.=.+-..++.|+.
T Consensus       120 nk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~  195 (677)
T KOG1915|consen  120 NKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARS  195 (677)
T ss_pred             hhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHH
Confidence            44677899999886642  332    33345555567899999999987655  47999999999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-CC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA-GH-SPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~-gv-~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +++...-.  .|++.+|--...-=-++|....|..+|+...+. |- ..+...|+++..-=.++..++.|.-++....++
T Consensus       196 IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~  273 (677)
T KOG1915|consen  196 IYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH  273 (677)
T ss_pred             HHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99998764  599999998888888999999999999986653 21 112233333333334567788899898887765


Q ss_pred             CC-cccHHHHHHHHhccCCCChH--HHHHHhcCccC
Q 047934          308 GF-LVNDKAVREFLDKKAPFSSS--VWEAIFGKKTL  340 (344)
Q Consensus       308 Gi-~p~~~~~~~Ll~~yak~g~~--~W~all~~~~~  340 (344)
                      -= .-....|..++.-=-++|+.  .-++++|+-++
T Consensus       274 ~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~  309 (677)
T KOG1915|consen  274 IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKF  309 (677)
T ss_pred             cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhh
Confidence            11 11244555555433344432  24455555443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=94.89  E-value=1.2  Score=39.63  Aligned_cols=158  Identities=13%  Similarity=0.043  Sum_probs=80.5

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCHH-----HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC---
Q 047934          152 PISEPPQEADEIFKKMKETGLIPNAV-----AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQK---  223 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~~~-----tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~---  223 (344)
                      +..|++++|.+.|+++...--...+.     .+..++-+.|++++|...|+.+.+.--.....-+.-.+.+.+....   
T Consensus        16 ~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~~   95 (203)
T PF13525_consen   16 LQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQIPG   95 (203)
T ss_dssp             HHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCcc
Confidence            44789999999999998753221222     4788899999999999999998876322222333333333332211   


Q ss_pred             ----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 047934          224 ----------FDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERG  293 (344)
Q Consensus       224 ----------~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~  293 (344)
                                ..+|..               .+..+|.-|=......+|...+..+...    =...--.+..-|.+.|.
T Consensus        96 ~~~~~~D~~~~~~A~~---------------~~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~~~  156 (203)
T PF13525_consen   96 ILRSDRDQTSTRKAIE---------------EFEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKRGK  156 (203)
T ss_dssp             HH-TT---HHHHHHHH---------------HHHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCTT-
T ss_pred             chhcccChHHHHHHHH---------------HHHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHccc
Confidence                      122333               3444555555555555555444444321    00001124444555666


Q ss_pred             HHHHHHHHHHHHHC--CCcccHHHHHHHHhccCCCCh
Q 047934          294 VEKAQSVIATLKEK--GFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       294 ~e~a~~l~~~M~~~--Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      +..|..-++.+.+.  +..-.......++..|-+.|.
T Consensus       157 y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~  193 (203)
T PF13525_consen  157 YKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGL  193 (203)
T ss_dssp             HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCC
Confidence            66666666655554  222223344445555555544

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.86  E-value=0.8  Score=43.49  Aligned_cols=138  Identities=14%  Similarity=0.207  Sum_probs=93.6

Q ss_pred             HHHHHHHHcCC-----HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--cC----CHHHHHHHHHHHHHCC---CCCCH
Q 047934          178 AMLDGLCKDGL-----IQEAMKLFGLMREKGTIPEVVIYTAVVDGFCK--AQ----KFDDAKRIFRKMQSNG---IAPNA  243 (344)
Q Consensus       178 tli~~~~k~g~-----~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k--~g----~~e~A~~vf~~M~~~g---i~pd~  243 (344)
                      ++...++-.+.     +++.+.+++.|.+.|++-+..+|-+.......  ..    ....|..+|+.|++.-   ..++.
T Consensus        62 ~la~~l~~~~~~p~~~~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D  141 (297)
T PF13170_consen   62 ILAALLDISFEDPEEAFKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPED  141 (297)
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccc
Confidence            45555555554     45677799999999999998888664444333  22    2467999999999863   25677


Q ss_pred             HHHHHHHHHHHHcCCH----HHHHHHHHHHHHcCCCCC-H-HHHHHHHHHHHHcCC--HHHHHHHHHHHHHCCCcccHHH
Q 047934          244 FSYNLLIQGLYKCNKL----EEAVEYCIEMLEAGHSPN-V-TTFVGLVDGLCRERG--VEKAQSVIATLKEKGFLVNDKA  315 (344)
Q Consensus       244 ~tyn~LI~ay~k~g~~----~~A~~lf~~M~~~gv~pd-~-~ty~~lL~a~~~~G~--~e~a~~l~~~M~~~Gi~p~~~~  315 (344)
                      .++.+|+..  ...+.    +.+..+|+.+...|+... . ...+.+|..+.....  +..+.++++.+.+.|+++....
T Consensus       142 ~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~  219 (297)
T PF13170_consen  142 YPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMH  219 (297)
T ss_pred             hhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCcccccc
Confidence            888888776  44443    567888888988887553 3 333444444332222  5688999999999999876555


Q ss_pred             HH
Q 047934          316 VR  317 (344)
Q Consensus       316 ~~  317 (344)
                      |.
T Consensus       220 yp  221 (297)
T PF13170_consen  220 YP  221 (297)
T ss_pred             cc
Confidence            44

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

Probab=94.75  E-value=0.68  Score=49.30  Aligned_cols=146  Identities=16%  Similarity=0.190  Sum_probs=109.2

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047934          181 DGLCKDGLIQEAMKLFGLMREKG--TIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       181 ~~~~k~g~~~~A~~lf~~M~~~g--~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~  258 (344)
                      .++......+.+..+.....+..  ..-++..|--+-++|...|++.+|..+|..+.....--+.+.|--+-.+|-..|.
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            33444444444444444455554  3346678899999999999999999999999887666678899999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHH--------HHCCCcccHHHHHHHHhccCCCCh
Q 047934          259 LEEAVEYCIEMLEAGHSPN-VTTFVGLVDGLCRERGVEKAQSVIATL--------KEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       259 ~~~A~~lf~~M~~~gv~pd-~~ty~~lL~a~~~~G~~e~a~~l~~~M--------~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      .++|.+.|+.....  .|+ ...-..|-+.+-+.|+.|+|.+++..|        ...++.|+........++|...|.
T Consensus       465 ~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk  541 (895)
T KOG2076|consen  465 YEEAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGK  541 (895)
T ss_pred             HHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhh
Confidence            99999999998875  333 333445666677899999999999985        344577777777777777777665

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

Probab=94.74  E-value=0.61  Score=44.77  Aligned_cols=107  Identities=13%  Similarity=0.175  Sum_probs=78.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      ..|.-|...|....|.++-.++   .+ ||..-|-..|.+|++.++|++.+++-..      +-+.+-|-.++.+|.+.|
T Consensus       182 ~Ti~~li~~~~~k~A~kl~k~F---kv-~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~  251 (319)
T PF04840_consen  182 DTIRKLIEMGQEKQAEKLKKEF---KV-PDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYG  251 (319)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHc---CC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCC
Confidence            4577777888888887776655   22 6888888888888888888887776432      225578888888888888


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      ..++|......+          ++..-+..|.++|++.+|.+.-.+.
T Consensus       252 ~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  252 NKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             CHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHHc
Confidence            888888877662          2255677778888888887665543

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

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

Probab=94.72  E-value=2.6  Score=38.90  Aligned_cols=126  Identities=15%  Similarity=0.100  Sum_probs=95.0

Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          182 GLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEE  261 (344)
Q Consensus       182 ~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~  261 (344)
                      .+...|+-+....+...... ...-|....+++.......|++.+|..+|.+...- -.+|-..|+.+=.+|-+.|++++
T Consensus        75 a~~~~G~a~~~l~~~~~~~~-~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~~~  152 (257)
T COG5010          75 ALYLRGDADSSLAVLQKSAI-AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRFDE  152 (257)
T ss_pred             HHHhcccccchHHHHhhhhc-cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccChhH
Confidence            33344555555554443222 23346667778999999999999999999998654 46688999999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCc
Q 047934          262 AVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFL  310 (344)
Q Consensus       262 A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~  310 (344)
                      |..-|.+..+.-. -+...++-|.-.+.-.|+.+.|..++......+-.
T Consensus       153 Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a  200 (257)
T COG5010         153 ARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA  200 (257)
T ss_pred             HHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC
Confidence            9999988777522 13455667777788889999999999988876554

>PLN02789 farnesyltranstransferase

Probab=94.71  E-value=4  Score=39.19  Aligned_cols=94  Identities=17%  Similarity=0.117  Sum_probs=50.3

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          188 LIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQK--FDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEY  265 (344)
Q Consensus       188 ~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~--~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~l  265 (344)
                      ..++++.+++.+.+..-+ +..+|+-.--.+.+.+.  .+++..+++.|.+..- -|...|+..--++.+.|.++++++.
T Consensus        87 ~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~  164 (320)
T PLN02789         87 DLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEY  164 (320)
T ss_pred             hHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHH
Confidence            456666666666654322 33445433333344443  2455666666655432 2556666666666666667777777


Q ss_pred             HHHHHHcCCCCCHHHHHHH
Q 047934          266 CIEMLEAGHSPNVTTFVGL  284 (344)
Q Consensus       266 f~~M~~~gv~pd~~ty~~l  284 (344)
                      ++++.+.... |...|+-.
T Consensus       165 ~~~~I~~d~~-N~sAW~~R  182 (320)
T PLN02789        165 CHQLLEEDVR-NNSAWNQR  182 (320)
T ss_pred             HHHHHHHCCC-chhHHHHH
Confidence            7766665432 33444433

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

Probab=94.58  E-value=0.22  Score=35.26  Aligned_cols=53  Identities=23%  Similarity=0.370  Sum_probs=25.4

Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          217 GFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEML  270 (344)
Q Consensus       217 ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~  270 (344)
                      .+...|++++|..+|+.+.+.. .-+...|..+-.++...|++++|...|++..
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444555555555555555443 1134444455555555555555555555544

>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=94.57  E-value=1.6  Score=44.62  Aligned_cols=126  Identities=13%  Similarity=0.120  Sum_probs=97.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPE-VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd-~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      +-..|-..|+.++|+++.+...+.  .|+ +..|.+--..|-+.|++++|.+.++..+..... |-..=+-.+..+.++|
T Consensus       200 lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~  276 (517)
T PF12569_consen  200 LAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAG  276 (517)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCC
Confidence            345566889999999999988876  344 678888888899999999999999998876433 6677777888889999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHH--------HHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTF--------VGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty--------~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +.++|.+++......+..|-...+        ...-.+|.+.|++..|.+-|..+.+.
T Consensus       277 ~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~  334 (517)
T PF12569_consen  277 RIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKH  334 (517)
T ss_pred             CHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            999999999988877654333221        33456677889888887777766553

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 [], [].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.47  E-value=0.69  Score=44.69  Aligned_cols=146  Identities=12%  Similarity=0.134  Sum_probs=101.1

Q ss_pred             HHHHHHHHHHHHHCC----CCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047934          157 PQEADEIFKKMKETG----LIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFR  232 (344)
Q Consensus       157 ~~~A~~lf~~M~~~g----i~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~  232 (344)
                      +.-|...|...-+.+    ..|-..+|.+.+.-...+++++-+++.++.-=..-|.+-|| +-.+++..|.+.+|+++|-
T Consensus       339 lKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~  417 (557)
T KOG3785|consen  339 LKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFI  417 (557)
T ss_pred             HHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHh
Confidence            555666665544443    33444578888888888888888887766543333444444 6778889999999999997


Q ss_pred             HHHHCCCCCCHHHHH-HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH-HHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          233 KMQSNGIAPNAFSYN-LLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTF-VGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       233 ~M~~~gi~pd~~tyn-~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty-~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      .+..-.++ |..+|- .|..+|.+++.++.|++++-.|...+   +..+. -.+..-|-+++.+--|-+.|++++..
T Consensus       418 ~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~---e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l  490 (557)
T KOG3785|consen  418 RISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNTPS---ERFSLLQLIANDCYKANEFYYAAKAFDELEIL  490 (557)
T ss_pred             hhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCCch---hHHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc
Confidence            76554444 566665 55678899999999998876664321   33332 34556688999999999999998875

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=94.44  E-value=1  Score=41.98  Aligned_cols=98  Identities=17%  Similarity=0.138  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCCHHHH
Q 047934          208 VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN----AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG--HSPNVTTF  281 (344)
Q Consensus       208 ~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd----~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g--v~pd~~ty  281 (344)
                      ...|...+..+.+.|++++|...|+.+.+.-  |+    ...+-.+-.+|...|++++|...|+.+...-  -......+
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl  220 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHH
Confidence            4567777777777899999999999998762  33    2456677888899999999999999998641  11223444


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          282 VGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       282 ~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      -.+...+...|+.++|.++++.+.+.
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            44566677899999999999988765

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

Probab=94.40  E-value=1.2  Score=48.35  Aligned_cols=129  Identities=13%  Similarity=0.156  Sum_probs=91.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~  258 (344)
                      +-..+..++..++|+.+|+..-     .+....+.||.   ..+.++.|.+.-++..      ....|+.+-.+-.+.|.
T Consensus      1054 ia~iai~~~LyEEAF~ifkkf~-----~n~~A~~VLie---~i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~ 1119 (1666)
T KOG0985|consen 1054 IAEIAIENQLYEEAFAIFKKFD-----MNVSAIQVLIE---NIGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGL 1119 (1666)
T ss_pred             HHHHHhhhhHHHHHHHHHHHhc-----ccHHHHHHHHH---HhhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCc
Confidence            4455566677788888887542     25666666666   3455666666655543      45678888888888888


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCChH
Q 047934          259 LEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSS  329 (344)
Q Consensus       259 ~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~~  329 (344)
                      +.+|.+-|-+.      -|...|.-+++.+.+.|.+++-.+.+...+++.-+|...  +.||-+|++-+..
T Consensus      1120 v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl 1182 (1666)
T KOG0985|consen 1120 VKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRL 1182 (1666)
T ss_pred             hHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchH
Confidence            88887765432      277888888888888898888888888888777766544  4677778877764

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=94.35  E-value=0.34  Score=50.68  Aligned_cols=108  Identities=15%  Similarity=0.276  Sum_probs=71.6

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCH
Q 047934          180 LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKL  259 (344)
Q Consensus       180 i~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~  259 (344)
                      |.+-..+..|.+|+.+++.+++...  -.--|.-+-+.|+..|+++.|+++|.+--         .++-.|++|.++|.|
T Consensus       739 ieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccH
Confidence            4455556778888888888876633  23446777888899999999999886532         466778899999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          260 EEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSV  300 (344)
Q Consensus       260 ~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l  300 (344)
                      .+|.++-++.  .|-+.....|.+-..-.-..|.+.+|.++
T Consensus       808 ~da~kla~e~--~~~e~t~~~yiakaedldehgkf~eaeql  846 (1636)
T KOG3616|consen  808 EDAFKLAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQL  846 (1636)
T ss_pred             HHHHHHHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhhe
Confidence            9888875543  33333444454444444455555555444

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=94.14  E-value=1.1  Score=38.44  Aligned_cols=85  Identities=11%  Similarity=0.063  Sum_probs=38.1

Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          183 LCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEA  262 (344)
Q Consensus       183 ~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A  262 (344)
                      +...|++++|..+|+.+..-.. -+..-|-.|=-+|-..|++++|...|........ -|...+-.+=.+|.+.|+.+.|
T Consensus        45 ly~~G~l~~A~~~f~~L~~~Dp-~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~A  122 (157)
T PRK15363         45 LMEVKEFAGAARLFQLLTIYDA-WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCYA  122 (157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHHH
Confidence            3344555555555554443321 1222333333334444555555555555444332 2344444444455555555555


Q ss_pred             HHHHHHH
Q 047934          263 VEYCIEM  269 (344)
Q Consensus       263 ~~lf~~M  269 (344)
                      .+.|+..
T Consensus       123 ~~aF~~A  129 (157)
T PRK15363        123 IKALKAV  129 (157)
T ss_pred             HHHHHHH
Confidence            5555443

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

Probab=94.02  E-value=0.33  Score=34.28  Aligned_cols=58  Identities=19%  Similarity=0.180  Sum_probs=47.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          249 LIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       249 LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +-..+.+.|++++|.++|++..+.. .-+...+..+-..+...|++++|..+++.+.+.
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            3456889999999999999999875 226777888888899999999999999998753

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

Probab=94.02  E-value=2.2  Score=42.92  Aligned_cols=151  Identities=16%  Similarity=0.113  Sum_probs=113.3

Q ss_pred             CCCHHHHHHHHHHHHHCCCCC-C-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIP-N-AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p-~-~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      +|+.-.|...|+......-.+ + +.-+-..|+...+.++....|....+..- -|..+|----.++.-.+++++|..=|
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp-~n~dvYyHRgQm~flL~q~e~A~aDF  417 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDP-ENPDVYYHRGQMRFLLQQYEEAIADF  417 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCC-CCCchhHhHHHHHHHHHHHHHHHHHH
Confidence            788888888888888765433 2 22356778888899999999988876542 24445544444455566889999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          232 RKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       232 ~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      ++.....-+ ++..|--+--+..+.+.+++++..|++.++. +.-.+..|+..-..+...++++.|.+.++..++.
T Consensus       418 ~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  418 QKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            988765311 4567777777778899999999999998875 4456778888889999999999999999977653

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

Probab=93.87  E-value=2.3  Score=44.11  Aligned_cols=150  Identities=13%  Similarity=0.099  Sum_probs=81.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------CCCCCHHHHHHHHHH
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSN------GIAPNAFSYNLLIQG  252 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~------gi~pd~~tyn~LI~a  252 (344)
                      .|.-....+.++-+..+++...+-    +...-+--|.-+++.+++++|-+.+......      .-+-+...|.-+-+-
T Consensus       144 yl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdl  219 (835)
T KOG2047|consen  144 YLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDL  219 (835)
T ss_pred             HHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHH
Confidence            333333444444455555444432    3333455555556666666666665554322      112233445544444


Q ss_pred             HHHcCCHHH---HHHHHHHHHHcCCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCC
Q 047934          253 LYKCNKLEE---AVEYCIEMLEAGHSPNV--TTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFS  327 (344)
Q Consensus       253 y~k~g~~~~---A~~lf~~M~~~gv~pd~--~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g  327 (344)
                      .+++-+.-.   ...+++.+..  .-+|.  ..|++|-+.|.+.|++++|..++++-...-  .+..-|+.+.+.|+.+.
T Consensus       220 is~~p~~~~slnvdaiiR~gi~--rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FE  295 (835)
T KOG2047|consen  220 ISQNPDKVQSLNVDAIIRGGIR--RFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFE  295 (835)
T ss_pred             HHhCcchhcccCHHHHHHhhcc--cCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHH
Confidence            444332221   1222222221  12343  358899999999999999999999877653  34556677777777766


Q ss_pred             hHHHHHHhc
Q 047934          328 SSVWEAIFG  336 (344)
Q Consensus       328 ~~~W~all~  336 (344)
                      ...-.++++
T Consensus       296 E~~~~~~me  304 (835)
T KOG2047|consen  296 ESCVAAKME  304 (835)
T ss_pred             HHHHHHHHh
Confidence            654444443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=93.81  E-value=3.4  Score=44.81  Aligned_cols=154  Identities=13%  Similarity=0.107  Sum_probs=101.3

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHcCCHHHHHHHHHHHHHc----CC-CCCHHHHHHHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETGLIPNA-------VAMLDGLCKDGLIQEAMKLFGLMREK----GT-IPEVVIYTAVVDGFCK  220 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~p~~-------~tli~~~~k~g~~~~A~~lf~~M~~~----g~-~pd~~tyn~LI~ay~k  220 (344)
                      ..|++++|..++++..+.--..+.       ..+-..+...|++++|...+.+....    |- .....++..+-..+..
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~  543 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA  543 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH
Confidence            478999999999987653111111       12344566789999999999887643    11 1123455666677888


Q ss_pred             cCCHHHHHHHHHHHHH----CCCC--C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCC--HHHHHHHHHHHH
Q 047934          221 AQKFDDAKRIFRKMQS----NGIA--P-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA--GHSPN--VTTFVGLVDGLC  289 (344)
Q Consensus       221 ~g~~e~A~~vf~~M~~----~gi~--p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~--gv~pd--~~ty~~lL~a~~  289 (344)
                      .|++++|...+++...    .+..  + ....+..+-..+...|++++|...+++....  ...+.  ..++..+-..+.
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  623 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISL  623 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHH
Confidence            9999999999887654    2221  1 2334555566677789999999999887542  11122  233444555667


Q ss_pred             HcCCHHHHHHHHHHHHH
Q 047934          290 RERGVEKAQSVIATLKE  306 (344)
Q Consensus       290 ~~G~~e~a~~l~~~M~~  306 (344)
                      ..|+.++|.+.+.....
T Consensus       624 ~~G~~~~A~~~l~~a~~  640 (903)
T PRK04841        624 ARGDLDNARRYLNRLEN  640 (903)
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            88999999998888754

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=93.75  E-value=2.3  Score=34.75  Aligned_cols=103  Identities=17%  Similarity=0.069  Sum_probs=74.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC---H-HHHHHHHHHHH
Q 047934          216 DGFCKAQKFDDAKRIFRKMQSNGIAPN--AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN---V-TTFVGLVDGLC  289 (344)
Q Consensus       216 ~ay~k~g~~e~A~~vf~~M~~~gi~pd--~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd---~-~ty~~lL~a~~  289 (344)
                      .++-..|+.++|..+|++-.+.|....  ...+-.+-..|-..|++++|..+|++.....  |+   . .....+-.++.
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 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHH
Confidence            345678999999999999999887755  3456677788889999999999999887652  33   1 11222334667


Q ss_pred             HcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccC
Q 047934          290 RERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKA  324 (344)
Q Consensus       290 ~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~ya  324 (344)
                      ..|+.++|.+.+-....    ++...|.--|..|+
T Consensus        87 ~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   87 NLGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            88999999888876554    23346666666554

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

Probab=93.61  E-value=0.87  Score=47.58  Aligned_cols=144  Identities=13%  Similarity=0.071  Sum_probs=98.4

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          155 EPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKM  234 (344)
Q Consensus       155 g~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M  234 (344)
                      |-...|..+|+++.-      |.-+|.+|+..|...+|..+..+..+  -+||...|..|-+.......+++|.++++..
T Consensus       412 GitksAl~I~Erlem------w~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEkawElsn~~  483 (777)
T KOG1128|consen  412 GITKSALVIFERLEM------WDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEKAWELSNYI  483 (777)
T ss_pred             chHHHHHHHHHhHHH------HHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHHHHHHhhhh
Confidence            445555555555432      44588999999999999988877666  4689999999988877777778888877765


Q ss_pred             HHC-----CC----------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHH
Q 047934          235 QSN-----GI----------------------APNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN-VTTFVGLVD  286 (344)
Q Consensus       235 ~~~-----gi----------------------~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd-~~ty~~lL~  286 (344)
                      ..+     |.                      ..-..+|=.+=.++.++++++.|.+.|......  .|| ...|+.+-.
T Consensus       484 sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL--~Pd~~eaWnNls~  561 (777)
T KOG1128|consen  484 SARAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL--EPDNAEAWNNLST  561 (777)
T ss_pred             hHHHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc--CCCchhhhhhhhH
Confidence            332     00                      001123333334444566777777777765543  454 567888888


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCC
Q 047934          287 GLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       287 a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      +|.+.+.-.+|...+.+..+.+
T Consensus       562 ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  562 AYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             HHHHHhhhHHHHHHHHHHhhcC
Confidence            8888888888888888887765

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=93.56  E-value=2.3  Score=36.44  Aligned_cols=88  Identities=10%  Similarity=-0.037  Sum_probs=71.0

Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          218 FCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKA  297 (344)
Q Consensus       218 y~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a  297 (344)
                      +...|++++|..+|+.+..-... +..-|-.|=.+|-..|++.+|++.|........ -|...+-.+-.++...|+.+.|
T Consensus        45 ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~A  122 (157)
T PRK15363         45 LMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCYA  122 (157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHHH
Confidence            45789999999999998775322 455667777778889999999999999887763 4677777788888999999999


Q ss_pred             HHHHHHHHHC
Q 047934          298 QSVIATLKEK  307 (344)
Q Consensus       298 ~~l~~~M~~~  307 (344)
                      ++-|+..+..
T Consensus       123 ~~aF~~Ai~~  132 (157)
T PRK15363        123 IKALKAVVRI  132 (157)
T ss_pred             HHHHHHHHHH
Confidence            9999987765

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.51  E-value=0.8  Score=43.33  Aligned_cols=154  Identities=15%  Similarity=0.101  Sum_probs=89.4

Q ss_pred             CCCCCHHHHHHHHHHHHH-CCCCCCHH-HHHHHHHHcCCHHHHHHHHHHHHHcCCC-------------CCHHH------
Q 047934          152 PISEPPQEADEIFKKMKE-TGLIPNAV-AMLDGLCKDGLIQEAMKLFGLMREKGTI-------------PEVVI------  210 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~-~gi~p~~~-tli~~~~k~g~~~~A~~lf~~M~~~g~~-------------pd~~t------  210 (344)
                      |+.|+++.|.+-|.+..+ .|..|-.. .+-.+..+.|+.+.|+++..++.++|++             ||+..      
T Consensus       155 ykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~  234 (459)
T KOG4340|consen  155 YKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLV  234 (459)
T ss_pred             eccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHH
Confidence            567777777777776554 45555222 3444555667777777777777777653             22211      


Q ss_pred             --HHHHHH-------HHHHcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH
Q 047934          211 --YTAVVD-------GFCKAQKFDDAKRIFRKMQSN-GIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTT  280 (344)
Q Consensus       211 --yn~LI~-------ay~k~g~~e~A~~vf~~M~~~-gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~t  280 (344)
                        -.+++.       .+.+.++++.|.+-+-+|.-+ ..+.|.+|...+.-.=+ .+++.+..+-+.-+....- --..|
T Consensus       235 lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~nP-fP~ET  312 (459)
T KOG4340|consen  235 LHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQNP-FPPET  312 (459)
T ss_pred             HHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcCC-CChHH
Confidence              122332       234557777777777777433 34556666654432222 2334444444444444322 24678


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          281 FVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       281 y~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      |..++-.||+..-++.|-.++.+-...
T Consensus       313 FANlLllyCKNeyf~lAADvLAEn~~l  339 (459)
T KOG4340|consen  313 FANLLLLYCKNEYFDLAADVLAENAHL  339 (459)
T ss_pred             HHHHHHHHhhhHHHhHHHHHHhhCcch
Confidence            888888888888888888887764443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.48  E-value=0.17  Score=48.81  Aligned_cols=80  Identities=6%  Similarity=0.105  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          225 DDAKRIFRKMQSNGIAPNAFS-YNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIAT  303 (344)
Q Consensus       225 e~A~~vf~~M~~~gi~pd~~t-yn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~  303 (344)
                      .-|.+.|...-+.+.+-|+.- -.+|.+++.-..++|+++..+......=..-|...|+ +..+++..|+..+|+++|-.
T Consensus       340 KiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~  418 (557)
T KOG3785|consen  340 KIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIR  418 (557)
T ss_pred             HHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhh
Confidence            344555544444433333322 1233333333444444444444444332222333332 34444445555555555544


Q ss_pred             HH
Q 047934          304 LK  305 (344)
Q Consensus       304 M~  305 (344)
                      +.
T Consensus       419 is  420 (557)
T KOG3785|consen  419 IS  420 (557)
T ss_pred             hc
Confidence            33

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=93.43  E-value=1.4  Score=44.02  Aligned_cols=57  Identities=16%  Similarity=0.119  Sum_probs=36.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEV----VIYTAVVDGFCKAQKFDDAKRIFRKMQS  236 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~----~tyn~LI~ay~k~g~~e~A~~vf~~M~~  236 (344)
                      -+-.+|.+.|++++|+..|+...+.  .|+.    .+|..+-.+|++.|+.++|...+++..+
T Consensus        80 NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         80 NLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4566666777777777777665543  2442    3466677777777777777777766665

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

Probab=93.28  E-value=1.1  Score=45.84  Aligned_cols=108  Identities=18%  Similarity=0.303  Sum_probs=62.2

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHH----HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHH--HHHHH--HcCCHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAVA----MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAV--VDGFC--KAQKFD  225 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~t----li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~L--I~ay~--k~g~~e  225 (344)
                      +|++++|.+..+.+...+  |+..+    =+.++.+.+.+++|+.+.+.   .+   -..+++..  =.+||  +.+..|
T Consensus        25 ~~e~e~a~k~~~Kil~~~--pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~---~~~~~~~~~fEKAYc~Yrlnk~D   96 (652)
T KOG2376|consen   25 NGEYEEAVKTANKILSIV--PDDEDAIRCKVVALIQLDKYEDALKLIKK---NG---ALLVINSFFFEKAYCEYRLNKLD   96 (652)
T ss_pred             chHHHHHHHHHHHHHhcC--CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cc---hhhhcchhhHHHHHHHHHcccHH
Confidence            567777777777777543  44332    35555666777777744332   11   11222222  34444  556777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Q 047934          226 DAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG  273 (344)
Q Consensus       226 ~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g  273 (344)
                      +|...++.....    |..+-..--..+.+.+++++|+++++.+.+.+
T Consensus        97 ealk~~~~~~~~----~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~  140 (652)
T KOG2376|consen   97 EALKTLKGLDRL----DDKLLELRAQVLYRLERYDEALDIYQHLAKNN  140 (652)
T ss_pred             HHHHHHhccccc----chHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            777777633222    33355555666677777777777777776653

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=93.20  E-value=0.39  Score=50.23  Aligned_cols=141  Identities=18%  Similarity=0.206  Sum_probs=85.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAV-AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFR  232 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~-tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~  232 (344)
                      ...+.+|+.+++.+..+....-+. -+...|+..|+++-|.++|-+-         ..++-.|+||.+.|+|++|.++-.
T Consensus       745 akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kla~  815 (1636)
T KOG3616|consen  745 AKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKLAE  815 (1636)
T ss_pred             hhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHHHH
Confidence            346777777777777665543332 4678888899999999888542         345678899999999999988865


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH-------------HH------HHHc--CCCCC--HHHHHHHHHHHH
Q 047934          233 KMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYC-------------IE------MLEA--GHSPN--VTTFVGLVDGLC  289 (344)
Q Consensus       233 ~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf-------------~~------M~~~--gv~pd--~~ty~~lL~a~~  289 (344)
                      +.  .|-+.....|-+-..-+-+.|.+.+|.+++             ++      |...  ...||  ..|-..+-.-|-
T Consensus       816 e~--~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~aiqmydk~~~~ddmirlv~k~h~d~l~dt~~~f~~e~e  893 (1636)
T KOG3616|consen  816 EC--HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDKAIQMYDKHGLDDDMIRLVEKHHGDHLHDTHKHFAKELE  893 (1636)
T ss_pred             Hh--cCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchHHHHHHHhhCcchHHHHHHHHhChhhhhHHHHHHHHHHH
Confidence            54  333444555544444444444444443332             11      1110  01122  334455666667


Q ss_pred             HcCCHHHHHHHHHHHH
Q 047934          290 RERGVEKAQSVIATLK  305 (344)
Q Consensus       290 ~~G~~e~a~~l~~~M~  305 (344)
                      ..|++..|.+-|-+.-
T Consensus       894 ~~g~lkaae~~flea~  909 (1636)
T KOG3616|consen  894 AEGDLKAAEEHFLEAG  909 (1636)
T ss_pred             hccChhHHHHHHHhhh
Confidence            7788888887776543

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

Probab=93.05  E-value=0.74  Score=45.77  Aligned_cols=117  Identities=15%  Similarity=0.221  Sum_probs=82.5

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH-HHHH
Q 047934          208 VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNG-IAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTF-VGLV  285 (344)
Q Consensus       208 ~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~g-i~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty-~~lL  285 (344)
                      +.+|+.+|+..-+..-++.|+.+|.+..+.| +.+++..++++|.-|+. |+...|.++|+--...  -||...| .-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            4677888888888888899999999998888 67888899999987764 7777888888764332  3455444 3466


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCccc--HHHHHHHHhccCCCCh
Q 047934          286 DGLCRERGVEKAQSVIATLKEKGFLVN--DKAVREFLDKKAPFSS  328 (344)
Q Consensus       286 ~a~~~~G~~e~a~~l~~~M~~~Gi~p~--~~~~~~Ll~~yak~g~  328 (344)
                      .-+...++-+.|+.+|+.-+.+ +..+  ..+|..+|+-=++.|+
T Consensus       474 ~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~  517 (660)
T COG5107         474 LFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGS  517 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcc
Confidence            6667788888888888844332 1111  3567777765555554

>PLN02789 farnesyltranstransferase

Probab=93.01  E-value=8.8  Score=36.80  Aligned_cols=166  Identities=11%  Similarity=0.017  Sum_probs=109.8

Q ss_pred             CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcCC--HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          156 PPQEADEIFKKMKETGLIP--NAVAMLDGLCKDGL--IQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g~--~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      ++++|+..++++.+.+-+.  -|.---..+.+.|.  .++++++++.+.+..- -|..+|+-.--++...|.++++++.+
T Consensus        87 ~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~  165 (320)
T PLN02789         87 DLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYC  165 (320)
T ss_pred             hHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            5789999999888765442  13322122334454  3678888888887643 37888988888888899999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHc---CCH----HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHH
Q 047934          232 RKMQSNGIAPNAFSYNLLIQGLYKC---NKL----EEAVEYCIEMLEAGHSPNVTTFVGLVDGLCR----ERGVEKAQSV  300 (344)
Q Consensus       232 ~~M~~~gi~pd~~tyn~LI~ay~k~---g~~----~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~----~G~~e~a~~l  300 (344)
                      +++.+.... |...|+..--.+.+.   |..    +++++...++.... .-|...|+-+-..+..    .+...+|.+.
T Consensus       166 ~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~  243 (320)
T PLN02789        166 HQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSV  243 (320)
T ss_pred             HHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHH
Confidence            999987544 666777665555444   222    45566665555432 2356667666666655    2345668888


Q ss_pred             HHHHHHCCCcccHHHHHHHHhccCC
Q 047934          301 IATLKEKGFLVNDKAVREFLDKKAP  325 (344)
Q Consensus       301 ~~~M~~~Gi~p~~~~~~~Ll~~yak  325 (344)
                      +.+..+.+.. +......|++.|+.
T Consensus       244 ~~~~~~~~~~-s~~al~~l~d~~~~  267 (320)
T PLN02789        244 CLEVLSKDSN-HVFALSDLLDLLCE  267 (320)
T ss_pred             HHHhhcccCC-cHHHHHHHHHHHHh
Confidence            8887665433 56677788888875

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=92.97  E-value=1.6  Score=40.92  Aligned_cols=188  Identities=14%  Similarity=0.098  Sum_probs=114.9

Q ss_pred             hhcccccCCCCCCCCCHHHHHHHHHHHHHCC--CC-CCHH--H--HHHHHHHcCCHHHHHHHHHHHHH----cCCCC-CH
Q 047934          141 QRQEQKPNRNEPISEPPQEADEIFKKMKETG--LI-PNAV--A--MLDGLCKDGLIQEAMKLFGLMRE----KGTIP-EV  208 (344)
Q Consensus       141 ~~~y~~~~~~~~~sg~~~~A~~lf~~M~~~g--i~-p~~~--t--li~~~~k~g~~~~A~~lf~~M~~----~g~~p-d~  208 (344)
                      ...|.+....|...+++++|.+.|....+-.  .. +...  +  -...+.+..++++|.+.++...+    .|-.. =.
T Consensus        35 a~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA  114 (282)
T PF14938_consen   35 ADLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKGDPDEAIECYEKAIEIYREAGRFSQAA  114 (282)
T ss_dssp             HHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHCT-HHHHH
T ss_pred             HHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            3455555555555788999999998765421  11 1111  1  23333444588888888876543    23211 13


Q ss_pred             HHHHHHHHHHHHc-CCHHHHHHHHHHHHH----CCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-----CC
Q 047934          209 VIYTAVVDGFCKA-QKFDDAKRIFRKMQS----NGIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS-----PN  277 (344)
Q Consensus       209 ~tyn~LI~ay~k~-g~~e~A~~vf~~M~~----~gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~-----pd  277 (344)
                      .++..+-..|-.. |++++|.+.|.+..+    .|-.- -..++.-+...+++.|++++|.++|++....-+.     .+
T Consensus       115 ~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~  194 (282)
T PF14938_consen  115 KCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYS  194 (282)
T ss_dssp             HHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchh
Confidence            4666777778787 899999999987654    22111 1345667888899999999999999998875332     22


Q ss_pred             HH-HHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCccc--HHHHHHHHhccCCCCh
Q 047934          278 VT-TFVGLVDGLCRERGVEKAQSVIATLKEK--GFLVN--DKAVREFLDKKAPFSS  328 (344)
Q Consensus       278 ~~-ty~~lL~a~~~~G~~e~a~~l~~~M~~~--Gi~p~--~~~~~~Ll~~yak~g~  328 (344)
                      .. .|...+-.+...||...|.+.++.....  ++..+  ......||++|-....
T Consensus       195 ~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~  250 (282)
T PF14938_consen  195 AKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDV  250 (282)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-C
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCH
Confidence            22 2333344556689999999999998754  45444  5677777877665443

>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=92.95  E-value=0.39  Score=35.27  Aligned_cols=60  Identities=23%  Similarity=0.333  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHc----CC-CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          245 SYNLLIQGLYKCNKLEEAVEYCIEMLEA----GH-SPN-VTTFVGLVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       245 tyn~LI~ay~k~g~~~~A~~lf~~M~~~----gv-~pd-~~ty~~lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      +|+.+-..|...|++++|++.|++..+.    |- .|+ ..++..+-..|...|+.++|.+++++.
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4555555666666666666666554432    10 111 334555555556666666666666554

...

>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=92.94  E-value=4.4  Score=33.96  Aligned_cols=67  Identities=16%  Similarity=0.148  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCc
Q 047934          243 AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFL  310 (344)
Q Consensus       243 ~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~  310 (344)
                      .......++.+.+.|.-|.-.++..++.. .-+++......+-.||.+.|+..++.+++.+.-++|++
T Consensus        86 se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   86 SEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             -HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            34456677788888888888888888775 34678888889999999999999999999999999986

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

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

Probab=92.94  E-value=2.7  Score=45.68  Aligned_cols=129  Identities=10%  Similarity=0.062  Sum_probs=87.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      ++-.+|-+.|+.++|.++|+++.+.. .-|..+.|-+-..|+.. ++++|++++.+....               |...+
T Consensus       121 ~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~i~~k  183 (906)
T PRK14720        121 TLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------FIKKK  183 (906)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------HHhhh
Confidence            67788888899999999999888876 45788888888888888 888888888776543               33344


Q ss_pred             CHHHHHHHHHHHHHc-------------------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHH
Q 047934          258 KLEEAVEYCIEMLEA-------------------GHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVRE  318 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~-------------------gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~  318 (344)
                      ++..+.+++.++...                   |..--..++--+-..|-...+++++.+++..+.+..=. |......
T Consensus       184 q~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~  262 (906)
T PRK14720        184 QYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREE  262 (906)
T ss_pred             cchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHH
Confidence            444444444444332                   22233444555556677777888888888888876433 4444555


Q ss_pred             HHhccC
Q 047934          319 FLDKKA  324 (344)
Q Consensus       319 Ll~~ya  324 (344)
                      |++.|.
T Consensus       263 l~~~y~  268 (906)
T PRK14720        263 LIRFYK  268 (906)
T ss_pred             HHHHHH
Confidence            555444

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.93  E-value=7.8  Score=35.97  Aligned_cols=149  Identities=15%  Similarity=0.145  Sum_probs=102.8

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHH--HHHHH--HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAV--AMLDG--LCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKR  229 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~--tli~~--~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~  229 (344)
                      .|..+.|...++.+..+=  |...  --+.|  +-..|.+++|.++++.+.+.. +.|.++|--=|.+.-..|+--+|.+
T Consensus        65 ~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk  141 (289)
T KOG3060|consen   65 TGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIK  141 (289)
T ss_pred             hcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHH
Confidence            566778888888877653  3221  11222  234688999999999988775 5677888766666666676667776


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHHHHc---CCHHHHHHHHHHHH
Q 047934          230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTT-FVGLVDGLCRE---RGVEKAQSVIATLK  305 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~t-y~~lL~a~~~~---G~~e~a~~l~~~M~  305 (344)
                      -+....+. +-.|...|.-+-+.|...|+++.|.-++++|.-.  .|-... |..+-..+--.   .+.+.+++++....
T Consensus       142 ~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~al  218 (289)
T KOG3060|consen  142 ELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLI--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERAL  218 (289)
T ss_pred             HHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            66665553 4459999999999999999999999999999864  444333 33344443333   35677888888777


Q ss_pred             HCC
Q 047934          306 EKG  308 (344)
Q Consensus       306 ~~G  308 (344)
                      +..
T Consensus       219 kl~  221 (289)
T KOG3060|consen  219 KLN  221 (289)
T ss_pred             HhC
Confidence            653

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=92.88  E-value=9.4  Score=39.17  Aligned_cols=115  Identities=10%  Similarity=0.003  Sum_probs=80.5

Q ss_pred             HHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCC
Q 047934          189 IQEAMKLFGLMREKGTIPE-VVIYTAVVDGFCKAQ--------KFDDAKRIFRKMQSN-GIAPNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       189 ~~~A~~lf~~M~~~g~~pd-~~tyn~LI~ay~k~g--------~~e~A~~vf~~M~~~-gi~pd~~tyn~LI~ay~k~g~  258 (344)
                      .+.|.++|++..+.  .|+ ...|..+..+|....        .+..+.+........ ....+...|.++--.+...|+
T Consensus       358 ~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~  435 (517)
T PRK10153        358 LNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPELNVLPRIYEILAVQALVKGK  435 (517)
T ss_pred             HHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCC
Confidence            67899999988875  344 344544433332221        123344444433332 233455778877666777899


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          259 LEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       259 ~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +++|...+++..+..  |+...|..+-..|...|+.++|.+.+......
T Consensus       436 ~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        436 TDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             HHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            999999999988875  68889999999999999999999999987654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.79  E-value=2.7  Score=39.91  Aligned_cols=173  Identities=12%  Similarity=0.098  Sum_probs=108.8

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHH---HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPNAVAMLDG---LCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDD  226 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~~~tli~~---~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~  226 (344)
                      -.|.++++..+..+.++.+..|-.   .++++.   ..+.|..++|++-|....+-+---....||..+..|. .++.+.
T Consensus       121 IkYse~Dl~g~rsLveQlp~en~A---d~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy~-~~qyas  196 (459)
T KOG4340|consen  121 IKYSEGDLPGSRSLVEQLPSENEA---DGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHYS-SRQYAS  196 (459)
T ss_pred             HhcccccCcchHHHHHhccCCCcc---chhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHHh-hhhHHH
Confidence            346778888888888888765532   222222   2367888888888887766543335677887776664 467788


Q ss_pred             HHHHHHHHHHCCCC-------------CCH---------------HHHHHHHHHHHHcCCHHHHHHHHHHHHH-cCCCCC
Q 047934          227 AKRIFRKMQSNGIA-------------PNA---------------FSYNLLIQGLYKCNKLEEAVEYCIEMLE-AGHSPN  277 (344)
Q Consensus       227 A~~vf~~M~~~gi~-------------pd~---------------~tyn~LI~ay~k~g~~~~A~~lf~~M~~-~gv~pd  277 (344)
                      |++...++.++|++             ||+               ..+|.=...+.+.++.+.|.+-+-.|.- .....|
T Consensus       197 ALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elD  276 (459)
T KOG4340|consen  197 ALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELD  276 (459)
T ss_pred             HHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCC
Confidence            88888888777652             221               2367777777888888888888888753 344567


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          278 VTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       278 ~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      .+|...+--.-+ .++.-++.+-+..+.... ....+||.-|+-.|+|..-
T Consensus       277 PvTLHN~Al~n~-~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNey  325 (459)
T KOG4340|consen  277 PVTLHNQALMNM-DARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNEY  325 (459)
T ss_pred             chhhhHHHHhcc-cCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhHH
Confidence            777654432221 233444444444444442 2445677777777776553

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

Probab=92.70  E-value=4.3  Score=44.33  Aligned_cols=175  Identities=19%  Similarity=0.197  Sum_probs=105.9

Q ss_pred             hhHHhhhhhcCCCCCCCCCc----------ccccchhcccccCCCCCC---------CCCHHHHHHHHHHHHHCCCC---
Q 047934          116 ENFLDQFKLAIDKKPGNPQQ----------NESLGQRQEQKPNRNEPI---------SEPPQEADEIFKKMKETGLI---  173 (344)
Q Consensus       116 h~~~~k~gl~~~~~v~~~l~----------~~~~~~~~y~~~~~~~~~---------sg~~~~A~~lf~~M~~~gi~---  173 (344)
                      --++.|--|+.++|..+...          ...+.-.+|-...++|-+         ++-+++|..+|+...-.+-.   
T Consensus      1004 IELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf~~n~~A~~V 1083 (1666)
T KOG0985|consen 1004 IELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKFDMNVSAIQV 1083 (1666)
T ss_pred             HHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHhcccHHHHHH
Confidence            34566777777777665433          222223344444455433         56789999998865322100   


Q ss_pred             --------------------C-CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047934          174 --------------------P-NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFR  232 (344)
Q Consensus       174 --------------------p-~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~  232 (344)
                                          | -|..+-.+-.+.|.+.+|.+-|-   +.   -|...|--+|+...+.|.+++..+.+.
T Consensus      1084 Lie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyi---ka---dDps~y~eVi~~a~~~~~~edLv~yL~ 1157 (1666)
T KOG0985|consen 1084 LIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYI---KA---DDPSNYLEVIDVASRTGKYEDLVKYLL 1157 (1666)
T ss_pred             HHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHH---hc---CCcHHHHHHHHHHHhcCcHHHHHHHHH
Confidence                                0 01112222233333444433331   11   256778888888888888888888877


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          233 KMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       233 ~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      ..+++.-+|.+.  +.||-+|++.+++.+..+++       .-||......+-+-|...|.++.|.-++....
T Consensus      1158 MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vS 1221 (1666)
T KOG0985|consen 1158 MARKKVREPYID--SELIFAYAKTNRLTELEEFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYSNVS 1221 (1666)
T ss_pred             HHHHhhcCccch--HHHHHHHHHhchHHHHHHHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHHHhh
Confidence            666665566554  46788888888877766554       24677777778888888888888887777654

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

Probab=92.67  E-value=0.89  Score=32.33  Aligned_cols=62  Identities=21%  Similarity=0.171  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHH
Q 047934          243 AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRER-GVEKAQSVIATLK  305 (344)
Q Consensus       243 ~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G-~~e~a~~l~~~M~  305 (344)
                      ..+|..+=..+.+.|++++|+..|.+..+.. .-+...|..+-.+|...| +.++|.+.++...
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            4455555555666666666666666555542 113444555555555555 4566665555543

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=92.67  E-value=1  Score=32.34  Aligned_cols=54  Identities=15%  Similarity=0.212  Sum_probs=28.5

Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          217 GFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       217 ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      .|...+++++|.++++.+....-. +...|...-.+|.+.|++++|.+.|+...+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            445555555555555555554211 344445555555555555555555555554

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

Probab=92.41  E-value=5.3  Score=41.69  Aligned_cols=90  Identities=11%  Similarity=0.013  Sum_probs=60.1

Q ss_pred             hcccccCCCCCCCCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 047934          142 RQEQKPNRNEPISEPPQEADEIFKKMKETGLIP--NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFC  219 (344)
Q Consensus       142 ~~y~~~~~~~~~sg~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~  219 (344)
                      .+|++   .+...|++..|+.++....+..-..  -|-+-+..-..+..++.|..+|.....  ..|+..+|.--+..--
T Consensus       588 lM~ak---e~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er  662 (913)
T KOG0495|consen  588 LMYAK---EKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLER  662 (913)
T ss_pred             HHHHH---HHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHH
Confidence            45555   4455688888888888877754221  133556666677788888888876654  4566677766666666


Q ss_pred             HcCCHHHHHHHHHHHHH
Q 047934          220 KAQKFDDAKRIFRKMQS  236 (344)
Q Consensus       220 k~g~~e~A~~vf~~M~~  236 (344)
                      ..+..++|.+++++..+
T Consensus       663 ~ld~~eeA~rllEe~lk  679 (913)
T KOG0495|consen  663 YLDNVEEALRLLEEALK  679 (913)
T ss_pred             HhhhHHHHHHHHHHHHH
Confidence            66777888877766544

>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=92.27  E-value=0.47  Score=34.78  Aligned_cols=62  Identities=26%  Similarity=0.387  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCC-CC-HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSN----GIA-PN-AFSYNLLIQGLYKCNKLEEAVEYCIEML  270 (344)
Q Consensus       209 ~tyn~LI~ay~k~g~~e~A~~vf~~M~~~----gi~-pd-~~tyn~LI~ay~k~g~~~~A~~lf~~M~  270 (344)
                      .+|+.+-..|...|++++|+..|++..+.    |-. ++ ..++..|-.+|...|+.++|++.+++-.
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            45677777777778888877777776532    211 22 4567777778888888888888877654

...

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

Probab=92.16  E-value=0.94  Score=43.48  Aligned_cols=113  Identities=13%  Similarity=0.117  Sum_probs=81.8

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRK  233 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~  233 (344)
                      .|+...|.++-.+..-.+-. =|-..|.+|+..++|++-.++...      +-.+.-|--++.+|.+.|...+|..+...
T Consensus       190 ~~~~k~A~kl~k~Fkv~dkr-fw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~eA~~yI~k  262 (319)
T PF04840_consen  190 MGQEKQAEKLKKEFKVPDKR-FWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKEASKYIPK  262 (319)
T ss_pred             CCCHHHHHHHHHHcCCcHHH-HHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHHHHHHHHh
Confidence            56677887777665322211 155889999999999987775432      12458899999999999999999998877


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 047934          234 MQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLC  289 (344)
Q Consensus       234 M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~  289 (344)
                      +          ++.--+..|.++|++.+|.+.-.+.+      |.....-+...|.
T Consensus       263 ~----------~~~~rv~~y~~~~~~~~A~~~A~~~k------d~~~L~~i~~~~~  302 (319)
T PF04840_consen  263 I----------PDEERVEMYLKCGDYKEAAQEAFKEK------DIDLLKQILKRCP  302 (319)
T ss_pred             C----------ChHHHHHHHHHCCCHHHHHHHHHHcC------CHHHHHHHHHHCC
Confidence            2          44778999999999999987655443      4455555554443

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

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

Probab=92.12  E-value=4.1  Score=40.72  Aligned_cols=143  Identities=17%  Similarity=0.187  Sum_probs=105.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHH
Q 047934          176 AVAMLDGLCKDGLIQEAMKLFGLMREKG-TIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSY-NLLIQGL  253 (344)
Q Consensus       176 ~~tli~~~~k~g~~~~A~~lf~~M~~~g-~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~ty-n~LI~ay  253 (344)
                      |...|+...+..-++.|..+|-...+.| +.+++.+++++|..++. |+..-|..+|+.=...  -||...| +-.+.-+
T Consensus       400 ~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         400 FCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYLLFL  476 (660)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHHHHH
Confidence            4567888888889999999999999999 78999999999998764 6677888888753332  2455544 4567777


Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccC
Q 047934          254 YKCNKLEEAVEYCIEMLEAGHSPN--VTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKA  324 (344)
Q Consensus       254 ~k~g~~~~A~~lf~~M~~~gv~pd--~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~ya  324 (344)
                      ..-++-..|..+|+.-... ++-+  ...|..+|+.=...|++..+..+=+.|...  .|-..+...+...|+
T Consensus       477 i~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~  546 (660)
T COG5107         477 IRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHh
Confidence            8889999999999954432 1112  567899999989999998887777776653  334444444454444

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

Probab=92.11  E-value=1  Score=32.04  Aligned_cols=64  Identities=20%  Similarity=0.203  Sum_probs=43.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHH
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN-KLEEAVEYCIEMLE  271 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g-~~~~A~~lf~~M~~  271 (344)
                      +..+|..+=..+...|++++|+..|.+..+.. .-+...|..+-.+|.+.| ++++|++.|++..+
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            34566666677777777888888777776652 124556777777777777 67777777776544

...

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

Probab=91.61  E-value=7.2  Score=42.55  Aligned_cols=124  Identities=15%  Similarity=0.139  Sum_probs=70.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHcCCHHHHHH------------------HHHHHHHCC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKG-TIPEVVIYTAVVDGFCKAQKFDDAKR------------------IFRKMQSNG  238 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g-~~pd~~tyn~LI~ay~k~g~~e~A~~------------------vf~~M~~~g  238 (344)
                      .|+..|...+++++|.++.+.-.+.. -.+....|..+  .|...+..+++..                  +...|...+
T Consensus        36 ~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~--l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~~~i~~~~  113 (906)
T PRK14720         36 DLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGI--LSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHICDKILLYG  113 (906)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHH--HHHhhcchhhhhhhhhhhhcccccchhHHHHHHHHHHhhh
Confidence            47777777777777777776443321 11222222222  2333333333333                  333332211


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          239 IAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       239 i~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                        -+...+-.|-.+|-+.|+.++|..+++++.+.. .-|....+-+-..|+.. ++++|.++.......
T Consensus       114 --~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~  178 (906)
T PRK14720        114 --ENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR  178 (906)
T ss_pred             --hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH
Confidence              122345566667777788888888888877765 33566667777777777 777777777766544

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=91.51  E-value=4.9  Score=37.42  Aligned_cols=88  Identities=13%  Similarity=-0.054  Sum_probs=49.0

Q ss_pred             HcCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHHcCCHH
Q 047934          185 KDGLIQEAMKLFGLMREKGTIP--EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNG--IAPNAFSYNLLIQGLYKCNKLE  260 (344)
Q Consensus       185 k~g~~~~A~~lf~~M~~~g~~p--d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~g--i~pd~~tyn~LI~ay~k~g~~~  260 (344)
                      +.|++++|...|+.+.+..-..  ....+--+-..|...|++++|...|+.+...-  -......+--+...|.+.|+.+
T Consensus       155 ~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~  234 (263)
T PRK10803        155 DKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTA  234 (263)
T ss_pred             hcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHH
Confidence            3466677777776666542110  01344455566667777777777777776531  1111223333444555677777


Q ss_pred             HHHHHHHHHHHc
Q 047934          261 EAVEYCIEMLEA  272 (344)
Q Consensus       261 ~A~~lf~~M~~~  272 (344)
                      +|.++|++..+.
T Consensus       235 ~A~~~~~~vi~~  246 (263)
T PRK10803        235 KAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHHH
Confidence            777777766654

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.49  E-value=12  Score=34.82  Aligned_cols=150  Identities=14%  Similarity=0.081  Sum_probs=105.4

Q ss_pred             CCCHHHHHHHHHHHHHC---C-CCCC-HH---HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHHcCCH
Q 047934          154 SEPPQEADEIFKKMKET---G-LIPN-AV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDG-FCKAQKF  224 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~---g-i~p~-~~---tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~a-y~k~g~~  224 (344)
                      ..+.++.++++.+|...   | ..++ |.   -++-+..-.|+.+.|..+++.+.+.=  |...=.-.|=.+ +-..|.+
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhch
Confidence            34688999999988753   3 4444 32   25666677889999999999987762  332211111111 2356789


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          225 DDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       225 e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      ++|.++++.+.+.. +-|.++|--=|...-..|.--+|++-+.+..+. +.-|...|.-+-..|...|++++|.--+++|
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            99999999998875 446666664444444566666777777766654 4569999999999999999999999999888


Q ss_pred             HHC
Q 047934          305 KEK  307 (344)
Q Consensus       305 ~~~  307 (344)
                      .-.
T Consensus       181 ll~  183 (289)
T KOG3060|consen  181 LLI  183 (289)
T ss_pred             HHc
Confidence            754

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=91.44  E-value=4.6  Score=41.42  Aligned_cols=121  Identities=12%  Similarity=0.015  Sum_probs=81.7

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHH----HHHHHHHHcC--------CHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHc
Q 047934          155 EPPQEADEIFKKMKETGLIPNAV----AMLDGLCKDG--------LIQEAMKLFGLMREK-GTIPEVVIYTAVVDGFCKA  221 (344)
Q Consensus       155 g~~~~A~~lf~~M~~~gi~p~~~----tli~~~~k~g--------~~~~A~~lf~~M~~~-g~~pd~~tyn~LI~ay~k~  221 (344)
                      +..+.|..+|++..+.+  |+..    .+..+|....        .+..+.+........ ....+..+|.++--.+...
T Consensus       356 ~~~~~A~~lle~Ai~ld--P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~  433 (517)
T PRK10153        356 KSLNKASDLLEEILKSE--PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPELNVLPRIYEILAVQALVK  433 (517)
T ss_pred             HHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhc
Confidence            35778888998887653  4432    2222222211        123333333332222 2334567888876667778


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 047934          222 QKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTF  281 (344)
Q Consensus       222 g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty  281 (344)
                      |++++|...|++..+..  |+...|..+-..|...|+.++|.+.+++-...  .|...||
T Consensus       434 g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~pt~  489 (517)
T PRK10153        434 GKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGENTL  489 (517)
T ss_pred             CCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCchH
Confidence            99999999999998874  68899999999999999999999999887654  4554454

>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=90.57  E-value=1.3  Score=44.36  Aligned_cols=128  Identities=15%  Similarity=0.101  Sum_probs=61.5

Q ss_pred             CCCHHHHHHHHH-HHHHCCCCCCH-HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          154 SEPPQEADEIFK-KMKETGLIPNA-VAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       154 sg~~~~A~~lf~-~M~~~gi~p~~-~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      .++++++.++.. .-.-..+.++. ..++.-+-+.|..+.|+++-.+-..            -.+...++|+++.|.++-
T Consensus       274 ~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~~A~~~a  341 (443)
T PF04053_consen  274 RGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLDIALEIA  341 (443)
T ss_dssp             TT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HHHHHHHC
T ss_pred             cCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHHHHHHHH
Confidence            456666555543 11111122222 3577777788888888877654321            233445566666665554


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          232 RKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       232 ~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      ++..      +...|..|-+...+.|+++.|.+.|.+..+         |..|+--|.-.|+.+...++.+.....|
T Consensus       342 ~~~~------~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  342 KELD------DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             CCCS------THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HhcC------cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            3322      555666666666666666666666655432         2334444444555555555554444443

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.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=90.43  E-value=1.5  Score=31.46  Aligned_cols=56  Identities=20%  Similarity=0.096  Sum_probs=47.2

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          251 QGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       251 ~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      ..|.+.+++++|.++++.+.... +-+...+...-..+...|++++|.+.++...+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            56889999999999999999873 225666677778888999999999999998865

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

Probab=90.28  E-value=5.5  Score=42.72  Aligned_cols=119  Identities=18%  Similarity=0.179  Sum_probs=92.0

Q ss_pred             HHHcCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          183 LCKDGLIQEAMKLFGLMREK-GTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEE  261 (344)
Q Consensus       183 ~~k~g~~~~A~~lf~~M~~~-g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~  261 (344)
                      ....+.+..|++....+.++ +-.+-..++-+|+.  .+.|+.++|..+++.....+.. |..|..++-.+|-..++.++
T Consensus        19 ~ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl--~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKHPNALYAKVLKALSL--FRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHH--HHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            34567888999988876654 33333344444433  4889999999999998877666 99999999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          262 AVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       262 A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      |..+++.....  -|+......+..+|++.+.+.+-.++--+|-+
T Consensus        96 ~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK  138 (932)
T KOG2053|consen   96 AVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYK  138 (932)
T ss_pred             HHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999987654  67888888999999999988776555555444

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.07  E-value=3.9  Score=38.49  Aligned_cols=78  Identities=9%  Similarity=0.072  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----cCCCCCHHHHHH
Q 047934          209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE-----AGHSPNVTTFVG  283 (344)
Q Consensus       209 ~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~-----~gv~pd~~ty~~  283 (344)
                      .++..++..+..+|+.+.+...++++.... .-|...|..||.+|.+.|+...|+..|+.+..     .|+.|-..+...
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            456777888888888888888888887653 33677888888888888888888888887765     477777777665


Q ss_pred             HHHH
Q 047934          284 LVDG  287 (344)
Q Consensus       284 lL~a  287 (344)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5555

>PRK04841 transcriptional regulator MalT; Provisional

Probab=90.03  E-value=21  Score=38.77  Aligned_cols=154  Identities=12%  Similarity=0.014  Sum_probs=98.8

Q ss_pred             CCCCHHHHHHHHHHHHHC--CC----CCCHH-----HHHHHHHHcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKET--GL----IPNAV-----AMLDGLCKDGLIQEAMKLFGLMREKGTIPE----VVIYTAVVDG  217 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~--gi----~p~~~-----tli~~~~k~g~~~~A~~lf~~M~~~g~~pd----~~tyn~LI~a  217 (344)
                      ..|++++|..+.....+.  ..    .+...     .+-..+...|++++|..+++...+.--..+    ..+.+.+-..
T Consensus       421 ~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~  500 (903)
T PRK04841        421 SQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEV  500 (903)
T ss_pred             HCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHH
Confidence            367889999888876542  11    11111     122344578999999999988765311112    1344566667


Q ss_pred             HHHcCCHHHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCC--C-CHHHHHHHH
Q 047934          218 FCKAQKFDDAKRIFRKMQSN----GI-APNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA----GHS--P-NVTTFVGLV  285 (344)
Q Consensus       218 y~k~g~~e~A~~vf~~M~~~----gi-~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~----gv~--p-d~~ty~~lL  285 (344)
                      +...|++++|...+.+....    |- ..-..++..+-..+...|++++|...+++....    +..  + ....+..+-
T Consensus       501 ~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la  580 (903)
T PRK04841        501 HHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRA  580 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHH
Confidence            78899999999999887642    11 111234556666788899999999998886542    221  1 122333444


Q ss_pred             HHHHHcCCHHHHHHHHHHHHH
Q 047934          286 DGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       286 ~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      ..+...|++++|...+.+...
T Consensus       581 ~~~~~~G~~~~A~~~~~~al~  601 (903)
T PRK04841        581 QLLWEWARLDEAEQCARKGLE  601 (903)
T ss_pred             HHHHHhcCHHHHHHHHHHhHH
Confidence            556667999999999887654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.92  E-value=17  Score=34.08  Aligned_cols=127  Identities=10%  Similarity=0.048  Sum_probs=89.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-----HH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLI-----QG  252 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI-----~a  252 (344)
                      +++..+.-.+.+.-.+.++++.++..-+-+......|.++-...|+.+.|...|++..+..-+.|..+.+.++     ..
T Consensus       182 ~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i  261 (366)
T KOG2796|consen  182 SMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFL  261 (366)
T ss_pred             HHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhh
Confidence            4566666667788888888888887767788899999999999999999999999887654344444444433     34


Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHH--HHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          253 LYKCNKLEEAVEYCIEMLEAGHSPNVTTFV--GLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       253 y~k~g~~~~A~~lf~~M~~~gv~pd~~ty~--~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      |.-.+++..|...|.+.....- -|....|  +|+..|  .|+..+|.+.++.|...
T Consensus       262 ~lg~nn~a~a~r~~~~i~~~D~-~~~~a~NnKALcllY--lg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  262 HLGQNNFAEAHRFFTEILRMDP-RNAVANNNKALCLLY--LGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             eecccchHHHHHHHhhccccCC-CchhhhchHHHHHHH--HHHHHHHHHHHHHHhcc
Confidence            4456778888888877765421 1233333  343333  58889999999998875

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

Probab=89.69  E-value=29  Score=36.54  Aligned_cols=128  Identities=14%  Similarity=0.123  Sum_probs=92.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH----HHHCCCCCCHHHHHHHHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRK----MQSNGIAPNAFSYNLLIQGL  253 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~----M~~~gi~pd~~tyn~LI~ay  253 (344)
                      -|..+|++..-++.|..+++..++. ++-+..+|-+--..=-..|..+.+.++.++    +...|++.+..-|-.=-.+|
T Consensus       411 dLwlAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~  489 (913)
T KOG0495|consen  411 DLWLALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEAC  489 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHH
Confidence            3677777777888888888777654 666777776555555677777777777654    45678888888887777777


Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          254 YKCNKLEEAVEYCIEMLEAGHSP--NVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       254 ~k~g~~~~A~~lf~~M~~~gv~p--d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      -+.|..-.+..+.......|++-  -..||...-..|.+.+.++-|+.++....+
T Consensus       490 e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alq  544 (913)
T KOG0495|consen  490 EDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQ  544 (913)
T ss_pred             hhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHh
Confidence            77788777777777777766642  346777777778888877777777776554

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=89.57  E-value=17  Score=33.61  Aligned_cols=155  Identities=14%  Similarity=0.094  Sum_probs=102.9

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCHH-----HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc------
Q 047934          153 ISEPPQEADEIFKKMKETGLIPNAV-----AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKA------  221 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~p~~~-----tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~------  221 (344)
                      ..|++++|.+.|+.+..+..--.|.     .++-++-+.++.++|+..++++.+.--...-.-|-.-|.+.+.-      
T Consensus        46 ~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~~  125 (254)
T COG4105          46 QKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDDV  125 (254)
T ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCcc
Confidence            3789999999999999765332232     36777789999999999999988764333334555555555533      


Q ss_pred             -CCHHHHHHHHHHH---HH----CCCCCCHHHH------------HHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCCHH
Q 047934          222 -QKFDDAKRIFRKM---QS----NGIAPNAFSY------------NLLIQGLYKCNKLEEAVEYCIEMLEA--GHSPNVT  279 (344)
Q Consensus       222 -g~~e~A~~vf~~M---~~----~gi~pd~~ty------------n~LI~ay~k~g~~~~A~~lf~~M~~~--gv~pd~~  279 (344)
                       .+...+..-|..|   ..    ....+|+..-            ..+-.-|.+.|.+-.|..-+++|.+.  .-.-...
T Consensus       126 ~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~e  205 (254)
T COG4105         126 TRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLENYPDTSAVRE  205 (254)
T ss_pred             ccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhccccccchHH
Confidence             2333344444444   32    2344444321            23455677889999999999999986  2223345


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          280 TFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       280 ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      .+-.+..+|-..|..++|...-.-+...
T Consensus       206 aL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         206 ALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            5667888899999988888776666544

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=89.40  E-value=30  Score=36.15  Aligned_cols=151  Identities=13%  Similarity=0.153  Sum_probs=99.2

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHH----HHHHHHHHHHcCC----------CCCHHHH--HHHHHHHH
Q 047934          156 PPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQE----AMKLFGLMREKGT----------IPEVVIY--TAVVDGFC  219 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~----A~~lf~~M~~~g~----------~pd~~ty--n~LI~ay~  219 (344)
                      -.+...+++..+.++|+++-...+..-|-.....+-    |.++...+...|.          +|++..|  --++..|-
T Consensus       303 l~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D  382 (700)
T KOG1156|consen  303 LKEIVDKYLRPLLSKGVPSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYD  382 (700)
T ss_pred             hHHHHHHHHHHHhhcCCCchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHH
Confidence            466777788888899988755566655554333332    2222222222221          4555544  45778888


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          220 KAQKFDDAKRIFRKMQSNGIAPNAF-SYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQ  298 (344)
Q Consensus       220 k~g~~e~A~~vf~~M~~~gi~pd~~-tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~  298 (344)
                      +.|+++.|+...+....+  .|+.+ -|.+=-..+..+|.+++|..++++..+... +|...=.--.....++.+.++|.
T Consensus       383 ~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~-aDR~INsKcAKYmLrAn~i~eA~  459 (700)
T KOG1156|consen  383 KLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT-ADRAINSKCAKYMLRANEIEEAE  459 (700)
T ss_pred             HcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc-hhHHHHHHHHHHHHHccccHHHH
Confidence            999999999999988765  44433 344444777889999999999999877542 23322223333344678999999


Q ss_pred             HHHHHHHHCCC
Q 047934          299 SVIATLKEKGF  309 (344)
Q Consensus       299 ~l~~~M~~~Gi  309 (344)
                      ++....-+.|.
T Consensus       460 ~~~skFTr~~~  470 (700)
T KOG1156|consen  460 EVLSKFTREGF  470 (700)
T ss_pred             HHHHHhhhccc
Confidence            99999888876

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

Probab=89.25  E-value=4.6  Score=41.25  Aligned_cols=111  Identities=17%  Similarity=0.102  Sum_probs=86.7

Q ss_pred             HHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047934          190 QEAMKLFGLMR-EKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAP-NAFSYNLLIQGLYKCNKLEEAVEYCI  267 (344)
Q Consensus       190 ~~A~~lf~~M~-~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~  267 (344)
                      .+..++|-++. ..+.+.|..+++.|=-.|--.|+++.|.+.|+.....  +| |..+||-|=..++...+..+|+..+.
T Consensus       411 ~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~  488 (579)
T KOG1125|consen  411 AHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYN  488 (579)
T ss_pred             HHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHH
Confidence            34556666654 3455678888888888888899999999999998775  44 57789999999999999999999999


Q ss_pred             HHHHcCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          268 EMLEAGHSPN--VTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       268 ~M~~~gv~pd--~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      +.++.  +|.  .+=|| |--+|...|.+++|.+.|-+..
T Consensus       489 rALqL--qP~yVR~RyN-lgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  489 RALQL--QPGYVRVRYN-LGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHhc--CCCeeeeehh-hhhhhhhhhhHHHHHHHHHHHH
Confidence            98875  454  33355 4556889999999988877644

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=89.24  E-value=17  Score=33.22  Aligned_cols=157  Identities=8%  Similarity=0.085  Sum_probs=98.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH---HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIY---TAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK  255 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~ty---n~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k  255 (344)
                      .-..+.+.|++++|.+.|+.+...--.. ..+-   =.+..+|.+.+++++|...|++..+.--.-...-|...+.+.+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~  116 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTN  116 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhh
Confidence            3455667899999999999998763322 2333   23557778999999999999999876322223344444444431


Q ss_pred             --c---------------CC---HHHHHHHHHHHHHc----CCCCCHHHH------------HHHHHHHHHcCCHHHHHH
Q 047934          256 --C---------------NK---LEEAVEYCIEMLEA----GHSPNVTTF------------VGLVDGLCRERGVEKAQS  299 (344)
Q Consensus       256 --~---------------g~---~~~A~~lf~~M~~~----gv~pd~~ty------------~~lL~a~~~~G~~e~a~~  299 (344)
                        .               .+   ..+|++.|+++.+.    ...++....            -.+..-|.+.|.+.-|..
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~  196 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVN  196 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHH
Confidence              1               11   23566666666553    111122111            123444777888888888


Q ss_pred             HHHHHHHC--CCcccHHHHHHHHhccCCCChHH----HHHHhc
Q 047934          300 VIATLKEK--GFLVNDKAVREFLDKKAPFSSSV----WEAIFG  336 (344)
Q Consensus       300 l~~~M~~~--Gi~p~~~~~~~Ll~~yak~g~~~----W~all~  336 (344)
                      -++.+.+.  +-.........+++.|.+.|...    |...|+
T Consensus       197 r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        197 RVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            88888876  55666777788888888777643    444444

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=89.10  E-value=6.3  Score=33.36  Aligned_cols=95  Identities=9%  Similarity=0.111  Sum_probs=63.5

Q ss_pred             HHHcCCCCCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHH
Q 047934          199 MREKGTIPEVV--IYTAVVDGFCKAQKFDDAKRIFRKMQSNG-----IAPNAFSYNLLIQGLYKCNK-LEEAVEYCIEML  270 (344)
Q Consensus       199 M~~~g~~pd~~--tyn~LI~ay~k~g~~e~A~~vf~~M~~~g-----i~pd~~tyn~LI~ay~k~g~-~~~A~~lf~~M~  270 (344)
                      |++.+..+++.  ..|.++.-.+.-+.+.....+++.+..-.     -..|-.+|.+++.+.++... --.+..+|.-|+
T Consensus        28 ~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk  107 (145)
T PF13762_consen   28 MQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLK  107 (145)
T ss_pred             hhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHH
Confidence            34445555543  34777777777777777777777663320     02355678888888876666 345677888888


Q ss_pred             HcCCCCCHHHHHHHHHHHHHcCC
Q 047934          271 EAGHSPNVTTFVGLVDGLCRERG  293 (344)
Q Consensus       271 ~~gv~pd~~ty~~lL~a~~~~G~  293 (344)
                      +.+.+++..-|..+|.+|.+.-.
T Consensus       108 ~~~~~~t~~dy~~li~~~l~g~~  130 (145)
T PF13762_consen  108 KNDIEFTPSDYSCLIKAALRGYF  130 (145)
T ss_pred             HcCCCCCHHHHHHHHHHHHcCCC
Confidence            87788888888888888876533

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

Probab=89.05  E-value=5.7  Score=37.51  Aligned_cols=96  Identities=24%  Similarity=0.273  Sum_probs=54.2

Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHH
Q 047934          183 LCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN-AFSYNLLIQGLYKCNKLEE  261 (344)
Q Consensus       183 ~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd-~~tyn~LI~ay~k~g~~~~  261 (344)
                      ..+.+++++|+..|.+.++. .+-|.+-|..--.+|++.|.++.|.+=.+.-..-  .|. ..+|..|=.+|...|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l-~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIEL-DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhc-CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCcHHH
Confidence            44556666666666666554 2235566666666666666666666555444332  221 3356666666666666666


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHH
Q 047934          262 AVEYCIEMLEAGHSPNVTTFVG  283 (344)
Q Consensus       262 A~~lf~~M~~~gv~pd~~ty~~  283 (344)
                      |.+.|.+-++  +.|+-.+|-.
T Consensus       168 A~~aykKaLe--ldP~Ne~~K~  187 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDNESYKS  187 (304)
T ss_pred             HHHHHHhhhc--cCCCcHHHHH
Confidence            6666554433  4555555543

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=88.88  E-value=5.6  Score=32.63  Aligned_cols=120  Identities=11%  Similarity=0.025  Sum_probs=73.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 047934          211 YTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCR  290 (344)
Q Consensus       211 yn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~  290 (344)
                      ...+|..+.+.+....+..+++.+...+. .+...++.+|..|++.. ..+.++.+..   .   .+......+++.|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~---~---~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN---K---SNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh---c---cccCCHHHHHHHHHH
Confidence            45688888888999999999999988874 68889999999999864 3444455542   1   233334446666666


Q ss_pred             cCCHHHHHHHHHHHHHCCCcccH-----HHHHHHHhccCCC-ChHHHHHHhcCc
Q 047934          291 ERGVEKAQSVIATLKEKGFLVND-----KAVREFLDKKAPF-SSSVWEAIFGKK  338 (344)
Q Consensus       291 ~G~~e~a~~l~~~M~~~Gi~p~~-----~~~~~Ll~~yak~-g~~~W~all~~~  338 (344)
                      .+.++++..++..+....-..+.     ..+...++.+.+. ....|..++..+
T Consensus        82 ~~l~~~~~~l~~k~~~~~~Al~~~l~~~~d~~~a~~~~~~~~~~~lw~~~~~~~  135 (140)
T smart00299       82 AKLYEEAVELYKKDGNFKDAIVTLIEHLGNYEKAIEYFVKQNNPELWAEVLKAL  135 (140)
T ss_pred             cCcHHHHHHHHHhhcCHHHHHHHHHHcccCHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            66666666666554321100000     1123334444443 346788887654

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=88.83  E-value=7.9  Score=36.44  Aligned_cols=77  Identities=13%  Similarity=0.189  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCcccHHHHHHH
Q 047934          245 SYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE-----KGFLVNDKAVREF  319 (344)
Q Consensus       245 tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~-----~Gi~p~~~~~~~L  319 (344)
                      ++..++..+..+|+.+.+.+.++++.... .-|...|..++.+|.+.|+...|...++.+.+     .|+.|...+...+
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            77889999999999999999999998763 45899999999999999999999999998766     4999998887777


Q ss_pred             Hhc
Q 047934          320 LDK  322 (344)
Q Consensus       320 l~~  322 (344)
                      .+.
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            665

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

Probab=88.83  E-value=4.7  Score=43.14  Aligned_cols=133  Identities=18%  Similarity=0.108  Sum_probs=85.8

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHc-CC--------CC-CHHHHHHHHHHHHHcCC
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREK-GT--------IP-EVVIYTAVVDGFCKAQK  223 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~-g~--------~p-d~~tyn~LI~ay~k~g~  223 (344)
                      -|++|.|.+-..-++..-   -|.-|...|.+..+.+-|.-.+..|... |.        .+ +...-.+++  ....|.
T Consensus       741 iG~MD~AfksI~~IkS~~---vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvL--AieLgM  815 (1416)
T KOG3617|consen  741 IGSMDAAFKSIQFIKSDS---VWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVL--AIELGM  815 (1416)
T ss_pred             eccHHHHHHHHHHHhhhH---HHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHH--HHHHhh
Confidence            688999988777666532   3888999999999998888888877532 21        12 222222333  357789


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          224 FDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIAT  303 (344)
Q Consensus       224 ~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~  303 (344)
                      +++|+.+|++.++         |..|=.-|-..|.|++|+++-+.--.-.+.   .||---...+...++.+.|.+.|+.
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            9999999998875         556666777799999999876543222222   2333223333334556666665553

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

Probab=88.61  E-value=11  Score=39.45  Aligned_cols=130  Identities=13%  Similarity=0.193  Sum_probs=88.5

Q ss_pred             CHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHcCCHHHHHHHHHHHHHc------CCCCCHHHHHHHHHHHHHcCCHHH--
Q 047934          156 PPQEADEIFKKMKETGLIPN-AVAMLDGLCKDGLIQEAMKLFGLMREK------GTIPEVVIYTAVVDGFCKAQKFDD--  226 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p~-~~tli~~~~k~g~~~~A~~lf~~M~~~------g~~pd~~tyn~LI~ay~k~g~~e~--  226 (344)
                      -++-+.+++++-..  +.|. ..-.|.-+++.+++++|-+.+......      ..+.+...|.-+-+..+++.+.-.  
T Consensus       153 lPets~rvyrRYLk--~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~sl  230 (835)
T KOG2047|consen  153 LPETSIRVYRRYLK--VAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSL  230 (835)
T ss_pred             ChHHHHHHHHHHHh--cCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhccc
Confidence            34555555555443  2222 224788899999999999988876533      345677788888887777765443  


Q ss_pred             -HHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 047934          227 -AKRIFRKMQSNGIAPN--AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRE  291 (344)
Q Consensus       227 -A~~vf~~M~~~gi~pd--~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~  291 (344)
                       ...+++.+...  =+|  -..|++|.+-|++.|.++.|.+++++-...-  .++.-|+-+.++|+.-
T Consensus       231 nvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~F  294 (835)
T KOG2047|consen  231 NVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQF  294 (835)
T ss_pred             CHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHH
Confidence             44455555433  233  4679999999999999999999999876642  2455577777777653

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

Probab=88.22  E-value=7.8  Score=39.66  Aligned_cols=160  Identities=15%  Similarity=0.109  Sum_probs=100.3

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCCCHHHH----------HHHHHH-------
Q 047934          157 PQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMRE--KGTIPEVVIY----------TAVVDG-------  217 (344)
Q Consensus       157 ~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~--~g~~pd~~ty----------n~LI~a-------  217 (344)
                      +.-+.++.+.-++.-+  +|.++---|...|+..+|.++|..-..  ..+.|--..|          ..-|.+       
T Consensus       298 f~lsh~LV~~yP~~a~--sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl  375 (611)
T KOG1173|consen  298 FLLSHKLVDLYPSKAL--SWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL  375 (611)
T ss_pred             HHHHHHHHHhCCCCCc--chhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh
Confidence            4556666666555433  588877777777999999999976432  2222211111          111111       


Q ss_pred             --------------HHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CC----CC
Q 047934          218 --------------FCKAQKFDDAKRIFRKMQSNGIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA--GH----SP  276 (344)
Q Consensus       218 --------------y~k~g~~e~A~~vf~~M~~~gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~--gv----~p  276 (344)
                                    |...+..+.|.+.|.+..  ++.| |....+-+=-.....+.+.+|...|+.-+..  .+    .-
T Consensus       376 ~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~--ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~  453 (611)
T KOG1173|consen  376 MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQAL--AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIF  453 (611)
T ss_pred             ccCCcchHHHHHHHHHHhccHHHHHHHHHHHH--hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccc
Confidence                          344566777777776544  3444 4556666666666788999999999987632  11    12


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CcccHHHHHHHH
Q 047934          277 NVTTFVGLVDGLCRERGVEKAQSVIATLKEKG-FLVNDKAVREFL  320 (344)
Q Consensus       277 d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G-i~p~~~~~~~Ll  320 (344)
                      -..+++.|-.+|.+.+..++|...++...... ..++..+-..++
T Consensus       454 w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~i  498 (611)
T KOG1173|consen  454 WEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYI  498 (611)
T ss_pred             hhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHH
Confidence            45568888999999999999999999877653 333333333333

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

Probab=88.16  E-value=33  Score=35.51  Aligned_cols=150  Identities=12%  Similarity=0.088  Sum_probs=95.5

Q ss_pred             HHHHHHHHcC--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH--------HHHHCCCCCCHHHHH
Q 047934          178 AMLDGLCKDG--LIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFR--------KMQSNGIAPNAFSYN  247 (344)
Q Consensus       178 tli~~~~k~g--~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~--------~M~~~gi~pd~~tyn  247 (344)
                      +++..+.+..  ...+|.+++...-+..-.-..++-=+++......|+++.|.+++.        .+.+.+..|-++  .
T Consensus       344 ~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V--~  421 (652)
T KOG2376|consen  344 ILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTV--G  421 (652)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHH--H
Confidence            4554444332  355666666665544322234455566666778899999999998        555555555544  5


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHH----HHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHh
Q 047934          248 LLIQGLYKCNKLEEAVEYCIEMLEA--GHSPNVTTFVGLVDGL----CRERGVEKAQSVIATLKEKGFLVNDKAVREFLD  321 (344)
Q Consensus       248 ~LI~ay~k~g~~~~A~~lf~~M~~~--gv~pd~~ty~~lL~a~----~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~  321 (344)
                      +++..|.+.++-+.|..++.+-..+  .-.+......+++.-.    .+.|..++|..+++++.+.. .+|..+...++.
T Consensus       422 aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~  500 (652)
T KOG2376|consen  422 AIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVT  500 (652)
T ss_pred             HHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHH
Confidence            5677777877777777777765542  1122233333333333    35689999999999988743 457788888888


Q ss_pred             ccCCCChHH
Q 047934          322 KKAPFSSSV  330 (344)
Q Consensus       322 ~yak~g~~~  330 (344)
                      +|+......
T Consensus       501 a~~~~d~ek  509 (652)
T KOG2376|consen  501 AYARLDPEK  509 (652)
T ss_pred             HHHhcCHHH
Confidence            888877654

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

Probab=88.02  E-value=5.8  Score=41.69  Aligned_cols=154  Identities=16%  Similarity=0.097  Sum_probs=97.9

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHcCCHHHHHHHHHHH----------------------------H
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPNAV-AMLDGLCKDGLIQEAMKLFGLM----------------------------R  200 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~~~-tli~~~~k~g~~~~A~~lf~~M----------------------------~  200 (344)
                      .|...|+..+|..+..+-.++.--|-+. .+-+.......+++|.++++..                            .
T Consensus       433 CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl  512 (777)
T KOG1128|consen  433 CYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSL  512 (777)
T ss_pred             HHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHh
Confidence            3344788888888888777743333222 2223322333344555554432                            2


Q ss_pred             HcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHH
Q 047934          201 EKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN-AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVT  279 (344)
Q Consensus       201 ~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd-~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~  279 (344)
                      +.. ..-..+|=.+=.+..+++++..|.+.|.....  .+|| ...||.+-.+|.+.+.-.+|...+.+-.+.. .-+..
T Consensus       513 ~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~  588 (777)
T KOG1128|consen  513 EIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQ  588 (777)
T ss_pred             hcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCe
Confidence            111 01223333333444567788888888877654  3565 4589999999999999999999999987765 33444


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          280 TFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       280 ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      .|..-+....+.|.+++|.+.+..|.+.
T Consensus       589 iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  589 IWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             eeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            5555566667899999999999887653

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=87.73  E-value=16  Score=38.14  Aligned_cols=117  Identities=18%  Similarity=0.210  Sum_probs=82.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCHHHHH----HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPNAVAML----DGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFD  225 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~~~tli----~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e  225 (344)
                      .+...|+++.|..+.+.....  .|+..-+.    +.+..+|.+++|..++++..+... +|...-.--..-..++...+
T Consensus       380 h~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~-aDR~INsKcAKYmLrAn~i~  456 (700)
T KOG1156|consen  380 HYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT-ADRAINSKCAKYMLRANEIE  456 (700)
T ss_pred             HHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc-hhHHHHHHHHHHHHHccccH
Confidence            556688999999999987653  56555444    778899999999999998876643 45555445556667888999


Q ss_pred             HHHHHHHHHHHCCCCCCHHH--------HHHH--HHHHHHcCCHHHHHHHHHHHHH
Q 047934          226 DAKRIFRKMQSNGIAPNAFS--------YNLL--IQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       226 ~A~~vf~~M~~~gi~pd~~t--------yn~L--I~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      +|.++.....+.|.  ++..        |=.+  -.+|.+.|.+.+|++-|.....
T Consensus       457 eA~~~~skFTr~~~--~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k  510 (700)
T KOG1156|consen  457 EAEEVLSKFTREGF--GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEK  510 (700)
T ss_pred             HHHHHHHHhhhccc--chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHH
Confidence            99999998888765  3322        2222  2356677778888777766543

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=87.66  E-value=13  Score=35.14  Aligned_cols=139  Identities=9%  Similarity=0.144  Sum_probs=94.3

Q ss_pred             cCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHH-cC-CHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          186 DGLIQEAMKLFGLMRE-KGTIPEVVIYTAVVDGFCK-AQ-KFDDAKRIFRKMQSN-GIAPNAFSYNLLIQGLYKCNKLEE  261 (344)
Q Consensus       186 ~g~~~~A~~lf~~M~~-~g~~pd~~tyn~LI~ay~k-~g-~~e~A~~vf~~M~~~-gi~pd~~tyn~LI~ay~k~g~~~~  261 (344)
                      +..+.+|+.+|+.... ..+--|..+...|+..... .+ ....-.++.+.+... |-.++..+-..+|..+++.+++..
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNK  220 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHH
Confidence            3345566776663222 2355577777777776665 22 334444455555432 567788888889999999999999


Q ss_pred             HHHHHHHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH-----HHHCCCcccHHHHHHHHhccC
Q 047934          262 AVEYCIEMLEA-GHSPNVTTFVGLVDGLCRERGVEKAQSVIAT-----LKEKGFLVNDKAVREFLDKKA  324 (344)
Q Consensus       262 A~~lf~~M~~~-gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~-----M~~~Gi~p~~~~~~~Ll~~ya  324 (344)
                      -+++++..... +-.-|..-|..+|..-...|+.+-..++.++     +++.|+..+...-..|-+.+.
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~  289 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFK  289 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHH
Confidence            88888877655 5566888899999999999998888777774     455677777666655554443

>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=87.47  E-value=0.034  Score=46.28  Aligned_cols=83  Identities=11%  Similarity=0.153  Sum_probs=43.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~  258 (344)
                      +|..+.+.+..+.+..+++.+...+...+....+.|+..|++.+..+..+.+++..       +..-...++..|-+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcch
Confidence            55555556666666666666665554455666666666666665555555555411       11222345555555555


Q ss_pred             HHHHHHHHHH
Q 047934          259 LEEAVEYCIE  268 (344)
Q Consensus       259 ~~~A~~lf~~  268 (344)
                      +++|.-++.+
T Consensus        86 ~~~a~~Ly~~   95 (143)
T PF00637_consen   86 YEEAVYLYSK   95 (143)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHHH
Confidence            5555554444

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.

>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]

Probab=86.99  E-value=17  Score=34.88  Aligned_cols=55  Identities=20%  Similarity=0.159  Sum_probs=38.7

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 047934          238 GIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERG  293 (344)
Q Consensus       238 gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~  293 (344)
                      ++......|-.++.+|+..--.++|+..+.+-.+.|+- +..+|.-=++-+++...
T Consensus       294 ~~~~~~~l~kq~l~~~A~d~aieD~i~~L~~~~r~G~i-~l~~yLr~VR~lsReQF  348 (365)
T KOG2391|consen  294 AIECTAPLYKQILECYALDLAIEDAIYSLGKSLRDGVI-DLDQYLRHVRLLSREQF  348 (365)
T ss_pred             hhhccchHHHHHHHhhhhhhHHHHHHHHHHHHHhcCee-eHHHHHHHHHHHHHHHH
Confidence            34556677888999999888888888888887777743 56666555555555443

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

Probab=86.87  E-value=11  Score=35.75  Aligned_cols=94  Identities=16%  Similarity=0.105  Sum_probs=51.6

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCC-CCHHH-HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLI-PNAVA-MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKR  229 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~-p~~~t-li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~  229 (344)
                      .+++++++|+..|.+..+-.=. +.+.+ =-.+|++.|..+.|.+--+.-..-. +.-..+|..|=.+|...|++++|.+
T Consensus        92 m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A~~  170 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEAIE  170 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHHHH
Confidence            3456677777777666653211 11111 2456667777666666544433321 1124566666677777777777777


Q ss_pred             HHHHHHHCCCCCCHHHHHH
Q 047934          230 IFRKMQSNGIAPNAFSYNL  248 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~  248 (344)
                      -|++..+  +.|+-.+|-.
T Consensus       171 aykKaLe--ldP~Ne~~K~  187 (304)
T KOG0553|consen  171 AYKKALE--LDPDNESYKS  187 (304)
T ss_pred             HHHhhhc--cCCCcHHHHH
Confidence            7665544  4566555543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.80  E-value=3.7  Score=43.79  Aligned_cols=140  Identities=16%  Similarity=0.148  Sum_probs=64.7

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKR  229 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~  229 (344)
                      ..|..|++++|..-+-+..  |.. +..-+|.-|..+.++.+--.+++.+.+.|+. +...-+.||.+|.|.++.+...+
T Consensus       377 ~Ly~Kgdf~~A~~qYI~tI--~~l-e~s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~e  452 (933)
T KOG2114|consen  377 YLYGKGDFDEATDQYIETI--GFL-EPSEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTE  452 (933)
T ss_pred             HHHhcCCHHHHHHHHHHHc--ccC-ChHHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHH
Confidence            3344455555544443322  211 2233555555555555555555555555543 33444566666666666666555


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      +.+... .|.-  .+-.-..+..|-+.+-.++|..+-.....     .+.....++   -..+++++|.+.+..|
T Consensus       453 fI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  453 FISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             HHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            554433 2211  00122344444455555555444333222     222222232   2356777777666654

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

Probab=86.78  E-value=20  Score=35.98  Aligned_cols=134  Identities=17%  Similarity=0.232  Sum_probs=84.3

Q ss_pred             CCCHHHHHHHHHHHHHCCCC-CCHH-------HHHHHHHHcCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHcCCH
Q 047934          154 SEPPQEADEIFKKMKETGLI-PNAV-------AMLDGLCKDGLIQEAMKLFGLMRE-KGTIPEVVIYTAVVDGFCKAQKF  224 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~-p~~~-------tli~~~~k~g~~~~A~~lf~~M~~-~g~~pd~~tyn~LI~ay~k~g~~  224 (344)
                      .+++.+|.++|.+.-++--. |..-       -+|++|.... .+.......++.+ .|-.+-...|-+|+.  -+.+.+
T Consensus        19 q~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~n-ld~Me~~l~~l~~~~~~s~~l~LF~~L~~--Y~~k~~   95 (549)
T PF07079_consen   19 QKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLNN-LDLMEKQLMELRQQFGKSAYLPLFKALVA--YKQKEY   95 (549)
T ss_pred             HhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHhh-HHHHHHHHHHHHHhcCCchHHHHHHHHHH--HHhhhH
Confidence            67899999999998765322 2111       3677777654 3444444444443 343344444444443  477788


Q ss_pred             HHHHHHHHHHHHC--CCCC------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCCCHHHHHHHHH
Q 047934          225 DDAKRIFRKMQSN--GIAP------------NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA----GHSPNVTTFVGLVD  286 (344)
Q Consensus       225 e~A~~vf~~M~~~--gi~p------------d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~----gv~pd~~ty~~lL~  286 (344)
                      ++|.+.+..=.++  +.++            |-+-=+..+.++.+.|.+.++..++++|...    ...-+..+|+.++-
T Consensus        96 ~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vl  175 (549)
T PF07079_consen   96 RKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVL  175 (549)
T ss_pred             HHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHH
Confidence            8888887665543  2222            2222356788888999999999998888764    34478888888666


Q ss_pred             HHHH
Q 047934          287 GLCR  290 (344)
Q Consensus       287 a~~~  290 (344)
                      .+++
T Consensus       176 mlsr  179 (549)
T PF07079_consen  176 MLSR  179 (549)
T ss_pred             HHhH
Confidence            6654

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

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=86.55  E-value=6.1  Score=33.31  Aligned_cols=70  Identities=13%  Similarity=0.051  Sum_probs=48.9

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCHH-----HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 047934          152 PISEPPQEADEIFKKMKETGLIPNAV-----AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKA  221 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~~~-----tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~  221 (344)
                      ..+|++++|.+.|+.+..+--...+.     -++.+|.+.+++++|...++.+++..-...-+-|.-.+.+++.-
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~   95 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYY   95 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHH
Confidence            34778889999999888763222222     37888889999999999998888876444445566666665543

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.72  E-value=6.6  Score=37.58  Aligned_cols=99  Identities=18%  Similarity=0.234  Sum_probs=46.3

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC---CCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC
Q 047934          203 GTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSN---GIAP--NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN  277 (344)
Q Consensus       203 g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~---gi~p--d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd  277 (344)
                      |....+.+...++..-.....+++++..+-+++..   ...+  ..++|--++    -.-+.++++.++..=...|+-||
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll----lky~pq~~i~~l~npIqYGiF~d  134 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL----LKYDPQKAIYTLVNPIQYGIFPD  134 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH----HccChHHHHHHHhCcchhccccc
Confidence            33444445555555444445555555555444332   1111  112222221    12344455555555555555556


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          278 VTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       278 ~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      ..|++.+|+.+.+.++..+|..+.-.|.
T Consensus       135 qf~~c~l~D~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  135 QFTFCLLMDSFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            6666666666555555555554444443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=85.67  E-value=26  Score=31.30  Aligned_cols=122  Identities=12%  Similarity=0.135  Sum_probs=87.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNG---IAPNAFSYNLLIQGLY  254 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~g---i~pd~~tyn~LI~ay~  254 (344)
                      .|-.++...|+..||...|.+-..-=+.-|....-.+-.+....++...|..+++++.+..   -.||  +.-.+-..|+
T Consensus        94 rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~Ll~aR~la  171 (251)
T COG4700          94 RLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GHLLFARTLA  171 (251)
T ss_pred             HHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--chHHHHHHHH
Confidence            5888999999999999999887654456678888888888888999999999999988753   2333  4455667788


Q ss_pred             HcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          255 KCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIAT  303 (344)
Q Consensus       255 k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~  303 (344)
                      ..|...+|..-|+.....  -|+...-.---..+++.|+.+++..-+.+
T Consensus       172 a~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         172 AQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             hcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            889999999999888765  34433322233344567766665443333

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

Probab=85.63  E-value=15  Score=37.26  Aligned_cols=79  Identities=11%  Similarity=0.066  Sum_probs=53.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHH
Q 047934          213 AVVDGFCKAQKFDDAKRIFRKMQSNGIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN--VTTFVGLVDGLC  289 (344)
Q Consensus       213 ~LI~ay~k~g~~e~A~~vf~~M~~~gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd--~~ty~~lL~a~~  289 (344)
                      .|-.++-+.|+.++|.+.|++|.+.--.. ..-..-.||.+|...+...++..++.+-.+-. .|.  ..+|+..|-...
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~-lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDIS-LPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcccc-CCchHHHHHHHHHHHHH
Confidence            34444557799999999999997642121 33466789999999999999999998864322 233  455776665544


Q ss_pred             HcC
Q 047934          290 RER  292 (344)
Q Consensus       290 ~~G  292 (344)
                      ..+
T Consensus       343 av~  345 (539)
T PF04184_consen  343 AVG  345 (539)
T ss_pred             hhc
Confidence            444

The molecular function of this protein is uncertain.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=85.27  E-value=21  Score=31.54  Aligned_cols=59  Identities=14%  Similarity=0.152  Sum_probs=43.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKG--TIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSN  237 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g--~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~  237 (344)
                      .-..+...|++++|.+.|+.+...-  -+--....-.+..+|-+.|++++|...|+.+.+.
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3456678899999999999998762  1222344556788889999999999999998775

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.27  E-value=5.3  Score=38.21  Aligned_cols=82  Identities=17%  Similarity=0.230  Sum_probs=64.0

Q ss_pred             CCCHHHHHHHHHHHHHCC---CCCCHH--HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          154 SEPPQEADEIFKKMKETG---LIPNAV--AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~g---i~p~~~--tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      ...+++|+.++-.++..-   ..|.|.  ++++.|. .-+.++++.+...=..-|+-||.++++.||+.+.+.+++.+|.
T Consensus        77 ~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa  155 (418)
T KOG4570|consen   77 REEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAA  155 (418)
T ss_pred             ccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH-ccChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHH
Confidence            346889998888877542   344554  4555444 4567799999998889999999999999999999999999888


Q ss_pred             HHHHHHHH
Q 047934          229 RIFRKMQS  236 (344)
Q Consensus       229 ~vf~~M~~  236 (344)
                      ++...|..
T Consensus       156 ~vvt~~~~  163 (418)
T KOG4570|consen  156 SVVTEVMM  163 (418)
T ss_pred             HHHHHHHH
Confidence            87766654

>PRK15331 chaperone protein SicA; Provisional

Probab=85.26  E-value=9.9  Score=32.86  Aligned_cols=89  Identities=11%  Similarity=-0.030  Sum_probs=53.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          181 DGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLE  260 (344)
Q Consensus       181 ~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~  260 (344)
                      ..+-..|++++|..+|..+...+.- +..-|..|=.+|-..+.+++|...|...-..+. -|...+-.+-.+|...|+.+
T Consensus        45 y~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~  122 (165)
T PRK15331         45 YEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAA  122 (165)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHH
Confidence            3344567777777777766654322 344445555555566677777777766544432 13333444556666777777


Q ss_pred             HHHHHHHHHHH
Q 047934          261 EAVEYCIEMLE  271 (344)
Q Consensus       261 ~A~~lf~~M~~  271 (344)
                      .|+..|+...+
T Consensus       123 ~A~~~f~~a~~  133 (165)
T PRK15331        123 KARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHh
Confidence            77777766655

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=85.03  E-value=12  Score=31.53  Aligned_cols=52  Identities=13%  Similarity=0.135  Sum_probs=23.0

Q ss_pred             HcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          220 KAQKFDDAKRIFRKMQSNG--IAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       220 k~g~~e~A~~vf~~M~~~g--i~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      +.|++++|.+.|+.+..+-  -+-....---|+.+|.+.+++++|...+++..+
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFir   75 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIR   75 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            3444555555555544430  011122333445555555555555555555444

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=84.59  E-value=27  Score=34.35  Aligned_cols=61  Identities=20%  Similarity=0.149  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          245 SYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       245 tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      ++..|..+|.+.+.+.+|++..+..+..+ ..|+...--=-.+|...|+++.|+..|..+.+
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k  319 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALK  319 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence            45555566666666666666666555442 22444433344455556666666666666655

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=84.38  E-value=3.5  Score=38.52  Aligned_cols=137  Identities=21%  Similarity=0.257  Sum_probs=71.7

Q ss_pred             CHHHHHHHHHHHHHC-CCCCCHH-------HHHHHHHHcCCHHHHHHHHHHHHH---cCCCC--CHHHHHHHHHHHHHcC
Q 047934          156 PPQEADEIFKKMKET-GLIPNAV-------AMLDGLCKDGLIQEAMKLFGLMRE---KGTIP--EVVIYTAVVDGFCKAQ  222 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~-gi~p~~~-------tli~~~~k~g~~~~A~~lf~~M~~---~g~~p--d~~tyn~LI~ay~k~g  222 (344)
                      ++++|..+|++.-.. ...-+|.       .....+.+.++..+|-..|.++..   .. .|  -+..|...+..|.+.|
T Consensus        30 ~~e~Aa~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G  108 (282)
T PF14938_consen   30 DYEEAADLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAG  108 (282)
T ss_dssp             HHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT
T ss_pred             CHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC
Confidence            688888888865431 0000111       123344444444444444433221   11 11  1233444455555555


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHc----CCC-CCHHHHHHHHHHHHHcCCHHH
Q 047934          223 KFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC-NKLEEAVEYCIEMLEA----GHS-PNVTTFVGLVDGLCRERGVEK  296 (344)
Q Consensus       223 ~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~-g~~~~A~~lf~~M~~~----gv~-pd~~ty~~lL~a~~~~G~~e~  296 (344)
                      ++..|-+++..               +-..|-.. |+++.|++.|++-.+.    +-. --..++.-+...+.+.|++++
T Consensus       109 ~~~~aA~~~~~---------------lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~  173 (282)
T PF14938_consen  109 RFSQAAKCLKE---------------LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEE  173 (282)
T ss_dssp             -HHHHHHHHHH---------------HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHH
T ss_pred             cHHHHHHHHHH---------------HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHH
Confidence            55554444444               33445556 7899999888876542    311 013345667778899999999


Q ss_pred             HHHHHHHHHHCC
Q 047934          297 AQSVIATLKEKG  308 (344)
Q Consensus       297 a~~l~~~M~~~G  308 (344)
                      |.++|+++...-
T Consensus       174 A~~~~e~~~~~~  185 (282)
T PF14938_consen  174 AIEIYEEVAKKC  185 (282)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHh
Confidence            999999988753

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=84.27  E-value=17  Score=31.65  Aligned_cols=97  Identities=12%  Similarity=0.186  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCCHHHHHH
Q 047934          209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN--AFSYNLLIQGLYKCNKLEEAVEYCIEMLEA---GHSPNVTTFVG  283 (344)
Q Consensus       209 ~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd--~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~---gv~pd~~ty~~  283 (344)
                      ..+..+-+.|++.|+.++|.+.|.++.+....+.  ...+-.+|......+++..+.....+....   |-..+...--.
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            5667788889999999999999999887644443  446678888888889998888877766543   22223322223


Q ss_pred             HHHHHH--HcCCHHHHHHHHHHHH
Q 047934          284 LVDGLC--RERGVEKAQSVIATLK  305 (344)
Q Consensus       284 lL~a~~--~~G~~e~a~~l~~~M~  305 (344)
                      +..|+.  ..+++.+|-++|-+..
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence            333332  4678888877777654

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.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=84.10  E-value=8.3  Score=38.61  Aligned_cols=100  Identities=12%  Similarity=0.029  Sum_probs=76.2

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH
Q 047934          205 IPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNA----FSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTT  280 (344)
Q Consensus       205 ~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~----~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~t  280 (344)
                      +.+...++.+-.+|.+.|++++|...|++..+.  .|+.    .+|..+-.+|++.|+.++|++.+++..+.+    ...
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----NLK  145 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc----chh
Confidence            346789999999999999999999999997775  5663    469999999999999999999999998852    112


Q ss_pred             HHHHHH--HHHHcCCHHHHHHHHHHHHHCCCc
Q 047934          281 FVGLVD--GLCRERGVEKAQSVIATLKEKGFL  310 (344)
Q Consensus       281 y~~lL~--a~~~~G~~e~a~~l~~~M~~~Gi~  310 (344)
                      |..+..  .+....+.++..++++++.+.|..
T Consensus       146 f~~i~~DpdL~plR~~pef~eLlee~rk~G~~  177 (453)
T PLN03098        146 FSTILNDPDLAPFRASPEFKELQEEARKGGED  177 (453)
T ss_pred             HHHHHhCcchhhhcccHHHHHHHHHHHHhCCc
Confidence            322211  111233456888899999988864

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=83.61  E-value=7.4  Score=30.66  Aligned_cols=44  Identities=9%  Similarity=0.053  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          262 AVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       262 A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      +.+-++.+....+.|+.....+.|+||.+.+++..|..+|+-.+
T Consensus        26 ~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          26 LRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33334444444555555555555555555555555555555444

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.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=83.49  E-value=48  Score=32.60  Aligned_cols=153  Identities=12%  Similarity=0.018  Sum_probs=97.2

Q ss_pred             CCCHHHHHHHHHHHHHCCCC--CCH-H---HHHHHHHH---cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----
Q 047934          154 SEPPQEADEIFKKMKETGLI--PNA-V---AMLDGLCK---DGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCK----  220 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~--p~~-~---tli~~~~k---~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k----  220 (344)
                      ..+++..+++++.|..-...  ++. .   -+.-++-+   .|+-++|++++..+....-.++..||..+-..|-.    
T Consensus       154 iqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyKD~~~~  233 (374)
T PF13281_consen  154 IQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRIYKDLFLE  233 (374)
T ss_pred             hhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHH
Confidence            55799999999998875211  111 1   24555566   78999999999997766667788888766655532    


Q ss_pred             -----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH----HHHHHH----HHHHHcCC---CCCHHHHHHH
Q 047934          221 -----AQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLE----EAVEYC----IEMLEAGH---SPNVTTFVGL  284 (344)
Q Consensus       221 -----~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~----~A~~lf----~~M~~~gv---~pd~~ty~~l  284 (344)
                           ....++|...|.+--+.  .||..+--.+...+.-.|.-.    ++.++-    ....+.|.   ..|.-.+.++
T Consensus       234 s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~dYWd~ATl  311 (374)
T PF13281_consen  234 SNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQDYWDVATL  311 (374)
T ss_pred             cCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccccHHHHHHH
Confidence                 12366777777654433  355443323333333334321    223332    12223332   4566778899


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          285 VDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       285 L~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      +.++.-.|+.++|.+..+.|.+..
T Consensus       312 ~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  312 LEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             HHHHHHcCCHHHHHHHHHHHhhcC
Confidence            999999999999999999999773

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=83.22  E-value=18  Score=34.18  Aligned_cols=135  Identities=6%  Similarity=0.081  Sum_probs=92.4

Q ss_pred             CCCHHHHHHHHHHHHH-CCCCCCHH---HHHHHHHH-cC-CHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          154 SEPPQEADEIFKKMKE-TGLIPNAV---AMLDGLCK-DG-LIQEAMKLFGLMRE-KGTIPEVVIYTAVVDGFCKAQKFDD  226 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~-~gi~p~~~---tli~~~~k-~g-~~~~A~~lf~~M~~-~g~~pd~~tyn~LI~ay~k~g~~e~  226 (344)
                      +..+.+|+++|+...- ..+.-|..   .++..+.. .+ ....-.++.+.+.. .+-.++..+...+|..+++.+++..
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNK  220 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHH
Confidence            3457788888884332 22333332   24455444 22 23333344444443 3567888999999999999999999


Q ss_pred             HHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH-----HHHcCCCCCHHHHHHHHHHH
Q 047934          227 AKRIFRKMQSN-GIAPNAFSYNLLIQGLYKCNKLEEAVEYCIE-----MLEAGHSPNVTTFVGLVDGL  288 (344)
Q Consensus       227 A~~vf~~M~~~-gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~-----M~~~gv~pd~~ty~~lL~a~  288 (344)
                      ..++++..... +..-|..-|..+|..-.+.|+..-..++.++     +++.++..+...-..+-..+
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            99999987765 6777999999999999999999888887775     34556766666655544443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=82.99  E-value=22  Score=28.34  Aligned_cols=44  Identities=9%  Similarity=0.036  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          262 AVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       262 A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      ..+-++.+....+.|+.....+.|.||.+.+++..|.++|+-++
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33334444444555555555566666666666666655555554

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 ....

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=82.45  E-value=45  Score=34.07  Aligned_cols=124  Identities=15%  Similarity=0.151  Sum_probs=78.4

Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCHHHH-------------------------HHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          182 GLCKDGLIQEAMKLFGLMREKGTIPEVVIY-------------------------TAVVDGFCKAQKFDDAKRIFRKMQS  236 (344)
Q Consensus       182 ~~~k~g~~~~A~~lf~~M~~~g~~pd~~ty-------------------------n~LI~ay~k~g~~e~A~~vf~~M~~  236 (344)
                      +|.+.++.+.|..+|.........||...=                         -.=-..+.+.|++..|..-|.++..
T Consensus       307 a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIk  386 (539)
T KOG0548|consen  307 AYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIK  386 (539)
T ss_pred             hhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHh
Confidence            666677777777777765444333332221                         0112335677899999999999988


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          237 NGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN-VTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       237 ~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd-~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      .. +-|...|+..-.||.+.+.+..|++-.+...+.  .|+ ...|.-=..++....+++.|.+.|.+-.+..
T Consensus       387 r~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  387 RD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             cC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            75 447889999999999999999998876666655  232 1122222222223346677777777666553

>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=81.84  E-value=0.28  Score=40.69  Aligned_cols=124  Identities=15%  Similarity=0.139  Sum_probs=78.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC
Q 047934          213 AVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRER  292 (344)
Q Consensus       213 ~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G  292 (344)
                      .+|..|.+.+..+.+..+++.+...+..-+....+.++..|++.+..+..+++++..       +..-...++..|.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcc
Confidence            356777777888888888888887766667888888888888888777777777621       1133345777777778


Q ss_pred             CHHHHHHHHHHHHHCCCcc----cHHHHHHHHhccCCCC-hHHHHHHhcCccCCCC
Q 047934          293 GVEKAQSVIATLKEKGFLV----NDKAVREFLDKKAPFS-SSVWEAIFGKKTLQKP  343 (344)
Q Consensus       293 ~~e~a~~l~~~M~~~Gi~p----~~~~~~~Ll~~yak~g-~~~W~all~~~~~~~~  343 (344)
                      .++++..++..+....-..    ....+...++.+.+.+ ...|..++..|--+++
T Consensus        85 l~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   85 LYEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             SHHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHHHHCTSTC
T ss_pred             hHHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHHHHHhcCc
Confidence            8888877777654332111    1122223334444555 3567777766655444

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.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=81.77  E-value=37  Score=31.64  Aligned_cols=97  Identities=21%  Similarity=0.349  Sum_probs=74.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-CCCCC-HHHH
Q 047934          208 VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNG----IAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA-GHSPN-VTTF  281 (344)
Q Consensus       208 ~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~g----i~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~-gv~pd-~~ty  281 (344)
                      ...|+.-++.| +.|++.+|...|....+..    ..||  .+=.|-.++...|+.++|..+|..+.+. +-.|- ..++
T Consensus       142 ~~~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~n--A~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdal  218 (262)
T COG1729         142 TKLYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPN--AYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDAL  218 (262)
T ss_pred             hHHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccch--hHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHH
Confidence            33688888865 6677999999999988762    2333  3445888999999999999999998764 33332 3566


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          282 VGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       282 ~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      --|-....+.|+.++|..+++++.+.
T Consensus       219 lKlg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         219 LKLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            66777778899999999999998875

>PRK15331 chaperone protein SicA; Provisional

Probab=80.66  E-value=37  Score=29.38  Aligned_cols=87  Identities=13%  Similarity=0.033  Sum_probs=67.5

Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          219 CKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQ  298 (344)
Q Consensus       219 ~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~  298 (344)
                      -..|++++|+.+|.-+...+.- +..-|..|-.+|-..+++++|..+|........ -|...+-..-.++...|+.+.|+
T Consensus        48 y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHHH
Confidence            4679999999999998775322 455677787888888999999999988766543 24444555667788899999999


Q ss_pred             HHHHHHHHC
Q 047934          299 SVIATLKEK  307 (344)
Q Consensus       299 ~l~~~M~~~  307 (344)
                      +.|......
T Consensus       126 ~~f~~a~~~  134 (165)
T PRK15331        126 QCFELVNER  134 (165)
T ss_pred             HHHHHHHhC
Confidence            999988874

>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=80.45  E-value=37  Score=34.18  Aligned_cols=108  Identities=10%  Similarity=0.062  Sum_probs=81.8

Q ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047934          175 NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLY  254 (344)
Q Consensus       175 ~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~  254 (344)
                      |..+=.....+.|+++.|.++-++.      .+...|..|=+...+.|+++.|++.|.+..         -|..|+--|.
T Consensus       320 D~~~rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~  384 (443)
T PF04053_consen  320 DPDHRFELALQLGNLDIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYS  384 (443)
T ss_dssp             -HHHHHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHH
T ss_pred             ChHHHhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHH
Confidence            3445678888999999999876543      377899999999999999999999998865         3667777788


Q ss_pred             HcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          255 KCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIAT  303 (344)
Q Consensus       255 k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~  303 (344)
                      -.|+.+...++.+.....|      -++....++.-.|+.++..+++.+
T Consensus       385 ~~g~~~~L~kl~~~a~~~~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  385 STGDREKLSKLAKIAEERG------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHcc------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            8999888888877766665      256667777778999888877654

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.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=80.21  E-value=28  Score=29.42  Aligned_cols=94  Identities=10%  Similarity=0.054  Sum_probs=71.4

Q ss_pred             HHHHHCCCCCCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-----CCCCHHHHHHHHHHHHHcCC-HHHHHHHHHH
Q 047934          232 RKMQSNGIAPNAF--SYNLLIQGLYKCNKLEEAVEYCIEMLEAG-----HSPNVTTFVGLVDGLCRERG-VEKAQSVIAT  303 (344)
Q Consensus       232 ~~M~~~gi~pd~~--tyn~LI~ay~k~g~~~~A~~lf~~M~~~g-----v~pd~~ty~~lL~a~~~~G~-~e~a~~l~~~  303 (344)
                      ..|.+.+..+++.  ..|+++.-.+..+.+...+.+++.+....     -..+..+|.+++.+.++..- --.+..+|+.
T Consensus        26 ~y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~  105 (145)
T PF13762_consen   26 PYMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNF  105 (145)
T ss_pred             HHhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHH
Confidence            3455556666653  46788888888889988888888774321     13467789999999977766 4467999999


Q ss_pred             HHHCCCcccHHHHHHHHhccCC
Q 047934          304 LKEKGFLVNDKAVREFLDKKAP  325 (344)
Q Consensus       304 M~~~Gi~p~~~~~~~Ll~~yak  325 (344)
                      |++.+.+++...|..+|.++.+
T Consensus       106 Lk~~~~~~t~~dy~~li~~~l~  127 (145)
T PF13762_consen  106 LKKNDIEFTPSDYSCLIKAALR  127 (145)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHc
Confidence            9999999999999999987653

>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=80.04  E-value=18  Score=31.51  Aligned_cols=93  Identities=18%  Similarity=0.226  Sum_probs=64.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH--
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIP--EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGL--  253 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~p--d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay--  253 (344)
                      .+..-|++.|+.++|++.|..+.+....+  -...+=.+|..+...+++..+.....+....-..........=+.+|  
T Consensus        41 ~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~~~g  120 (177)
T PF10602_consen   41 DLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKVYEG  120 (177)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHHH
Confidence            47889999999999999999998875443  34566788899999999999888887765532222212111112221  


Q ss_pred             ---HHcCCHHHHHHHHHHHH
Q 047934          254 ---YKCNKLEEAVEYCIEML  270 (344)
Q Consensus       254 ---~k~g~~~~A~~lf~~M~  270 (344)
                         ...+++.+|-++|-+..
T Consensus       121 L~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  121 LANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHhchHHHHHHHHHccC
Confidence               24678888888887764

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.

---

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	344
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-19
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 87.2 bits (214), Expect = 6e-19
 Identities = 37/275 (13%), Positives = 83/275 (30%), Gaps = 8/275 (2%)

Query: 54  NPPEPIPDRPLRGERPFTNQNQNRRSFQPRFNNYQQQQRPQQQSFQSPNGPRPKSPDGVQ 113
           +    +     +   P       +   + +     + QR + +          K+     
Sbjct: 6   HHHRKVQMGA-KDATPVPCGRWAKILEKDKRTQQMRMQRLKAKLQMPFQSGEFKALTRRL 64

Query: 114 SDENFLDQFKLAIDKKPGNPQQNESLGQRQEQKPNRNEPISEPPQEADEIFKKMKET--- 170
             E  L   ++A   +    Q  ES  + Q  +  +  P             +  +    
Sbjct: 65  QVEPRLLSKQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLS 124

Query: 171 GLIPNAVAMLDGLCKDGLIQEAMKLFGLMRE---KGTIPEVVIYTAVVDGFCKAQKFDDA 227
           G     +A          +  A  L  +      K  +  + +Y AV+ G+ +   F + 
Sbjct: 125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKEL 184

Query: 228 KRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCI-EMLEAGHSPNVTTFVGLVD 286
             +   ++  G+ P+  SY   +Q + + ++    +E C+ +M + G          L+ 
Sbjct: 185 VYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLS 244

Query: 287 GLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLD 321
              R   ++    V  T      L       + L 
Sbjct: 245 EEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLR 279

>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 = 48.7 bits (115), Expect = 2e-06
 Identities = 38/329 (11%), Positives = 81/329 (24%), Gaps = 91/329 (27%)

Query: 18  LHQSHPISISSALLRRFCS-----IRDFNTKNCDNDN--------RNDQNPPEPIP---- 60
           +     +S +  L     S     ++ F  +     N        + +Q  P  +     
Sbjct: 55  IMSKDAVSGTLRLFWTLLSKQEEMVQKF-VEEVLRINYKFLMSPIKTEQRQPSMMTRMYI 113

Query: 61  ---DRPLRGERPFTNQNQNRRSFQPRFNNYQQQQRPQQQSFQSPN---------GPRPKS 108
              DR     + F   N +R     +      + RP      + N         G   K+
Sbjct: 114 EQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRP------AKNVLIDGVLGSG---KT 164

Query: 109 --PDGVQSDENFLDQF-------KLAIDKKPG---NPQQN--ESLGQRQEQKPNRNEPIS 154
                V        +         L     P       Q     +      + + +  I 
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224

Query: 155 EPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFG---LM--REKGTI---- 205
                     +++ ++    N + +L  +  +     A        L+  R K       
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVLLNVQ-NAKAWNAFN-LSCKILLTTRFKQVTDFLS 282

Query: 206 PEVVIYTAVVD---GFCKAQKFDDAKRIFRK---MQSNGIAPNAFSYNLLIQGL------ 253
                + ++             D+ K +  K    +   +     + N     +      
Sbjct: 283 AATTTHISLDHHSMTLTP----DEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR 338

Query: 254 -----------YKCNKLEEAVEYCIEMLE 271
                        C+KL   +E  + +LE
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLE 367

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	344
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.98
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.84
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.83
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.51
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.47
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.93
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.93
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.9
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.9
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.88
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.87
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.85
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.85
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.83
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.83
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.8
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.8
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.75
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.75
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.74
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.73
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.73
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.71
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.7
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.69
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.68
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.68
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.66
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.66
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.66
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.63
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.62
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.6
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.59
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.58
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.56
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.54
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.51
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.51
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.49
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.47
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.47
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.47
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.46
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.46
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.41
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.41
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.4
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.39
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.37
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.35
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.3
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.29
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.27
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.27
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.18
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.17
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.16
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.14
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.14
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.1
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.06
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.05
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.05
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.02
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.02
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	97.99
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.96
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	97.96
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	97.96
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	97.94
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.92
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	97.9
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	97.9
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	97.9
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.89
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.88
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.87
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	97.87
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.86
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.84
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.84
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.82
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.78
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	97.75
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.74
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	97.74
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	97.73
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.7
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	97.69
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.68
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.68
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	97.67
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	97.66
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	97.65
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.65
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.64
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.63
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.61
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.61
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.59
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.58
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	97.58
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.58
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	97.57
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	97.56
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.54
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.53
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	97.53
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.52
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	97.52
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.52
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.5
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	97.49
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.49
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.49
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	97.48
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	97.47
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.46
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.46
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.46
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.45
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.45
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.44
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.44
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.43
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.42
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	97.41
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.39
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.38
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.37
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.37
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.35
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	97.35
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.34
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.32
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.31
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.31
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.29
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.29
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.28
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.25
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.25
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.23
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.23
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.23
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.23
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.2
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.17
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	97.16
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.15
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.15
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.14
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.13
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.13
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.09
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.06
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.03
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.03
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	97.02
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	96.99
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.92
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.88
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	96.79
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	96.76
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	96.7
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	96.67
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	96.66
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	96.66
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	96.65
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	96.59
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	96.57
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	96.54
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	96.53
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	96.45
4g1t_A	472	Interferon-induced protein with tetratricopeptide	96.39
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	96.31
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	96.29
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	96.29
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	96.03
2kat_A	115	Uncharacterized protein; NESG, structure, structur	95.97
2l6j_A	111	TPR repeat-containing protein associated with HSP;	95.93
4g1t_A	472	Interferon-induced protein with tetratricopeptide	95.92
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	95.91
2kat_A	115	Uncharacterized protein; NESG, structure, structur	95.87
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	95.86
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	95.76
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	95.75
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	95.59
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	95.56
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	95.48
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	95.32
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	95.31
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	95.12
2l6j_A	111	TPR repeat-containing protein associated with HSP;	95.11
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	95.05
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	94.92
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	94.89
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	94.72
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	94.68
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	94.41
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.29
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	94.23
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	94.21
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	93.9
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	93.73
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	93.33
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	93.19
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	92.7
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	92.56
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	92.46
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	92.22
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	91.43
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	91.35
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	91.08
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	90.47
1pc2_A	152	Mitochondria fission protein; unknown function; NM	89.84
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	88.24
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	87.92
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	87.56
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	87.44
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	86.2
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	85.44
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	85.41
1pc2_A	152	Mitochondria fission protein; unknown function; NM	85.31
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	85.3
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	84.61
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	81.61
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	80.69

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.98  E-value=2.4e-31  Score=267.14  Aligned_cols=180  Identities=14%  Similarity=0.137  Sum_probs=171.5

Q ss_pred             cCCCCCCCCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHcCC---------HHHHHHHHHHHHHcCCCCCHHHHHHH
Q 047934          147 PNRNEPISEPPQEADEIFKKMKETGLIPNA---VAMLDGLCKDGL---------IQEAMKLFGLMREKGTIPEVVIYTAV  214 (344)
Q Consensus       147 ~~~~~~~sg~~~~A~~lf~~M~~~gi~p~~---~tli~~~~k~g~---------~~~A~~lf~~M~~~g~~pd~~tyn~L  214 (344)
                      .++.|.+.|++++|+++|++|.+.|+.|+.   ++||.+|++.+.         +++|+++|++|.+.|+.||..|||+|
T Consensus        32 ~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~l  111 (501)
T 4g26_A           32 KLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNG  111 (501)
T ss_dssp             HHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            345778899999999999999999999985   469999998764         78999999999999999999999999


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Q 047934          215 VDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGV  294 (344)
Q Consensus       215 I~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~  294 (344)
                      |.+|++.|++++|+++|++|.+.|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++||.+|++.|++
T Consensus       112 I~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~  191 (501)
T 4g26_A          112 ARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNA  191 (501)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHCCCcccHHHHHHHHhccCCC
Q 047934          295 EKAQSVIATLKEKGFLVNDKAVREFLDKKAPF  326 (344)
Q Consensus       295 e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~  326 (344)
                      ++|.+++++|.+.|+.|+..||+.|++.|+..
T Consensus       192 d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          192 DKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999988753

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.96  E-value=2.2e-29  Score=252.99  Aligned_cols=172  Identities=19%  Similarity=0.265  Sum_probs=149.2

Q ss_pred             HHHHHHHHHHHHCCCCCCH----HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC---------H
Q 047934          158 QEADEIFKKMKETGLIPNA----VAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQK---------F  224 (344)
Q Consensus       158 ~~A~~lf~~M~~~gi~p~~----~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~---------~  224 (344)
                      ..+..++.++.++++..+.    ..+|++|++.|++++|+++|++|.+.|++||.+|||+||.+|++.+.         +
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            4667777888888876443    36799999999999999999999999999999999999999998765         6


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          225 DDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       225 e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      ++|.++|++|.+.|+.||.+|||+||.+|++.|++++|.++|++|.+.|+.||..||++||.+|++.|++++|.++|++|
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             HHCCCcccHHHHHHHHhccCCCChH
Q 047934          305 KEKGFLVNDKAVREFLDKKAPFSSS  329 (344)
Q Consensus       305 ~~~Gi~p~~~~~~~Ll~~yak~g~~  329 (344)
                      .+.|+.||..+|++||++|++.|..
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~  191 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNA  191 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCH
Confidence            9999999999999999999999974

>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=1e-21  Score=206.61  Aligned_cols=148  Identities=15%  Similarity=0.175  Sum_probs=127.4

Q ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH---HcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 047934          175 NAVAMLDGLCKDGLIQEAMKLFGLMR---EKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQ  251 (344)
Q Consensus       175 ~~~tli~~~~k~g~~~~A~~lf~~M~---~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~  251 (344)
                      ++++||++||+.|++++|.++|.+|.   +.|+.||++|||+||++||+.|++++|.++|++|.+.|+.||++|||+||.
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            45689999999999999999998876   458999999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCC-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCccc------HHHHHHHHhccC
Q 047934          252 GLYKCNK-LEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVN------DKAVREFLDKKA  324 (344)
Q Consensus       252 ay~k~g~-~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~------~~~~~~Ll~~ya  324 (344)
                      +||+.|+ .++|.++|++|.+.|+.||.+||+++|.++.+.+-++.+.++     .-++.|+      ..+...|.+.|+
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 CMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV-----KPTFSLPPQLPPPVNTSKLLRDVYA  283 (1134)
T ss_dssp             HHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGG-----CCCCCCCCCCCCCCCCCTTTHHHHC
T ss_pred             HHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHh-----CcccCCCCCCcccccchHHHHHHHc
Confidence            9999998 578999999999999999999999999887766544433333     3466665      556666777777


Q ss_pred             CCC
Q 047934          325 PFS  327 (344)
Q Consensus       325 k~g  327 (344)
                      +-+
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=99.83  E-value=2e-20  Score=196.90  Aligned_cols=120  Identities=11%  Similarity=0.151  Sum_probs=111.6

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 047934          205 IPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQS---NGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTF  281 (344)
Q Consensus       205 ~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~---~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty  281 (344)
                      .--..|||+||++||++|++++|.++|++|.+   .|+.||++|||+||++||+.|++++|.++|++|.+.|+.||.+||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            33467999999999999999999999988864   589999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCC-HHHHHHHHHHHHHCCCcccHHHHHHHHhccC
Q 047934          282 VGLVDGLCRERG-VEKAQSVIATLKEKGFLVNDKAVREFLDKKA  324 (344)
Q Consensus       282 ~~lL~a~~~~G~-~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~ya  324 (344)
                      ++||.+||+.|. .++|.++|++|.+.|+.||..+|++++..+.
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~e  247 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEED  247 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhh
Confidence            999999999997 5789999999999999999999998876543

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

Probab=99.51  E-value=6.4e-13  Score=132.74  Aligned_cols=173  Identities=9%  Similarity=-0.030  Sum_probs=104.2

Q ss_pred             CCCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETGL--IPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi--~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      ..|++++|.++|+++.+.+-  ...|..++.+|.+.|++++|+++|++|.+.+ +.+..+|+.+..+|.+.|++++|.++
T Consensus       385 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  463 (597)
T 2xpi_A          385 CVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEY  463 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHH
Confidence            35566666666666654321  1123456666666666666666666665542 23556666666666666666666666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          231 FRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA----GHSPN--VTTFVGLVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       231 f~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~----gv~pd--~~ty~~lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      |++|.+.. ..+..+|+.++.+|.+.|++++|.++|++|.+.    +..|+  ..+|..+..+|.+.|++++|.++++.+
T Consensus       464 ~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  542 (597)
T 2xpi_A          464 LQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQG  542 (597)
T ss_dssp             HHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            66665542 225666666666666666666666666666554    55565  566666666666666666666666666


Q ss_pred             HHCCCcccHHHHHHHHhccCCCCh
Q 047934          305 KEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       305 ~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      .+.+ ..+..+|..+...|.+.|.
T Consensus       543 ~~~~-p~~~~~~~~l~~~~~~~g~  565 (597)
T 2xpi_A          543 LLLS-TNDANVHTAIALVYLHKKI  565 (597)
T ss_dssp             HHHS-SCCHHHHHHHHHHHHHTTC
T ss_pred             HHhC-CCChHHHHHHHHHHHHhCC
Confidence            6543 2255666666666665554

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

Probab=99.47  E-value=2.9e-12  Score=127.97  Aligned_cols=175  Identities=10%  Similarity=-0.078  Sum_probs=97.1

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCC--CCCHHHHH----------------------------------HHHHHcCCHHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGL--IPNAVAML----------------------------------DGLCKDGLIQEAMK  194 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi--~p~~~tli----------------------------------~~~~k~g~~~~A~~  194 (344)
                      +...|++++|+++|++|.+.+-  ...+..++                                  .+|.+.|++++|.+
T Consensus       315 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  394 (597)
T 2xpi_A          315 LFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARR  394 (597)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHHHHHH
Confidence            4447888888888888876431  11233444                                  44555555555555


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Q 047934          195 LFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH  274 (344)
Q Consensus       195 lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv  274 (344)
                      +|+.+.+.. +.+..+|+.++.+|.+.|++++|.++|++|.+.+ ..+..+|+.++.+|.+.|++++|.++|++|.+.. 
T Consensus       395 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  471 (597)
T 2xpi_A          395 YFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-  471 (597)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            555544421 1234455555555555555555555555555432 1244555555555555555555555555555432 


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCccc--HHHHHHHHhccCCCCh
Q 047934          275 SPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK----GFLVN--DKAVREFLDKKAPFSS  328 (344)
Q Consensus       275 ~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~----Gi~p~--~~~~~~Ll~~yak~g~  328 (344)
                      ..+..+|..+...|.+.|++++|.++|+++.+.    +..|+  ..++..+...|.+.|.
T Consensus       472 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  531 (597)
T 2xpi_A          472 QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKM  531 (597)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTC
T ss_pred             CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcC
Confidence            224556666666666666666666666666554    55555  5566666666665554

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

Probab=98.93  E-value=2.2e-07  Score=79.64  Aligned_cols=176  Identities=9%  Similarity=-0.062  Sum_probs=138.5

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc-CCHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIP--NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKA-QKFDDA  227 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~-g~~e~A  227 (344)
                      +...|++++|.++|++..+..-..  .+..+...|...|++++|.++|+...+.. +.+..++..+...|... |++++|
T Consensus        18 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~~A   96 (225)
T 2vq2_A           18 YMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLNRPAES   96 (225)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcHHHH
Confidence            344788999999999988754221  12357788899999999999999988763 34788999999999999 999999


Q ss_pred             HHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          228 KRIFRKMQSNGIAPN-AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       228 ~~vf~~M~~~gi~pd-~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      ..+|+.+.+.+..|+ ...|..+..+|.+.|++++|.+.|+++.+.. .-+...+..+...|...|++++|.++++.+.+
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  175 (225)
T 2vq2_A           97 MAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQS  175 (225)
T ss_dssp             HHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999988433343 6788999999999999999999999988753 23578888999999999999999999999887


Q ss_pred             CCCcccHHHHHHHHhccCCCCh
Q 047934          307 KGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       307 ~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      ..-..+...+..+...+...|.
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~  197 (225)
T 2vq2_A          176 RVEVLQADDLLLGWKIAKALGN  197 (225)
T ss_dssp             HHCSCCHHHHHHHHHHHHHTTC
T ss_pred             hCCCCCHHHHHHHHHHHHhcCc
Confidence            5321345555555555555554

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=98.93  E-value=1.1e-07  Score=83.82  Aligned_cols=175  Identities=12%  Similarity=0.055  Sum_probs=131.3

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIP--NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      +...|++++|.++|+++.+..-..  .+..+...|...|++++|.++|+.+.+.. +.+..++..+..+|...|++++|.
T Consensus        47 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~  125 (252)
T 2ho1_A           47 YLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYEQKRYEEAY  125 (252)
T ss_dssp             HHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHHhHHHHHH
Confidence            334677889999998887654211  12346777888999999999998887663 236788888888999999999999


Q ss_pred             HHHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          229 RIFRKMQSNGIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       229 ~vf~~M~~~gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      .+|+++...+..| +...|..+..+|.+.|++++|.+.|++..+.. ..+...+..+...|...|++++|.++++.+.+.
T Consensus       126 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  204 (252)
T 2ho1_A          126 QRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDLFAQG  204 (252)
T ss_dssp             HHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999887743444 45678888888899999999999998887753 235777888888888999999999999988764


Q ss_pred             CCcccHHHHHHHHhccCCCCh
Q 047934          308 GFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       308 Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      .- .+...+..+...|.+.|.
T Consensus       205 ~~-~~~~~~~~~~~~~~~~g~  224 (252)
T 2ho1_A          205 GG-QNARSLLLGIRLAKVFED  224 (252)
T ss_dssp             SC-CCHHHHHHHHHHHHHTTC
T ss_pred             Cc-CcHHHHHHHHHHHHHccC
Confidence            32 345556666666666554

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=98.90  E-value=1.3e-07  Score=89.30  Aligned_cols=141  Identities=11%  Similarity=0.010  Sum_probs=87.0

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          184 CKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAV  263 (344)
Q Consensus       184 ~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~  263 (344)
                      ...|++++|...|+...+.. +-+..++..+..+|.+.|++++|...|+++.+.. .-+..+|..+..+|.+.|++++|.
T Consensus       214 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~  291 (388)
T 1w3b_A          214 KEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAE  291 (388)
T ss_dssp             HTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            33344444444443333321 1245666777777777777777777777776642 124566777777777777777777


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          264 EYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       264 ~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      ++|+++.+.. ..+..++..+...+...|++++|.++++.+.+.. ..+..++..+...|.+.|.
T Consensus       292 ~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  354 (388)
T 1w3b_A          292 DCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGK  354 (388)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCC
Confidence            7777776652 3456677777777777777777777777766532 2235566666666666654

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=98.90  E-value=8.7e-08  Score=91.74  Aligned_cols=172  Identities=13%  Similarity=0.067  Sum_probs=130.8

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCC-----HHHH------------HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIPN-----AVAM------------LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTA  213 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p~-----~~tl------------i~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~  213 (344)
                      +...|++++|.++|+++.+.+-...     +..+            ...|.+.|++++|+++|+.+.+.. +.+..++..
T Consensus       104 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  182 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELREL  182 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHH
Confidence            3447889999999999887542211     1122            334888999999999999988753 347888999


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHH--------
Q 047934          214 VVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN-VTTFVGL--------  284 (344)
Q Consensus       214 LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd-~~ty~~l--------  284 (344)
                      +..+|.+.|++++|..+|+++.+.. ..+..+|..+..+|.+.|++++|+++|+++...  .|+ ...+..+        
T Consensus       183 l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~  259 (450)
T 2y4t_A          183 RAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNK  259 (450)
T ss_dssp             HHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHH
Confidence            9999999999999999999987652 336889999999999999999999999998864  343 3444444        


Q ss_pred             ----HHHHHHcCCHHHHHHHHHHHHHCCCccc-----HHHHHHHHhccCCCCh
Q 047934          285 ----VDGLCRERGVEKAQSVIATLKEKGFLVN-----DKAVREFLDKKAPFSS  328 (344)
Q Consensus       285 ----L~a~~~~G~~e~a~~l~~~M~~~Gi~p~-----~~~~~~Ll~~yak~g~  328 (344)
                          ...|.+.|++++|.+++..+.+.  .|+     ..++..+...|.+.|.
T Consensus       260 ~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~  310 (450)
T 2y4t_A          260 LIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEK  310 (450)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCC
Confidence                77888899999999999998874  333     3466777777777765

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

Probab=98.88  E-value=1e-07  Score=88.01  Aligned_cols=166  Identities=13%  Similarity=0.066  Sum_probs=129.7

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCHH----HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETGLIPNAV----AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~p~~~----tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      ..++.++|++.++++...++.|+..    .+-..|.+.|++++|+++++.      +.+..++..+...|.+.|++++|.
T Consensus        77 ~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~  150 (291)
T 3mkr_A           77 SHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLAR  150 (291)
T ss_dssp             CSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            3567999999999999877666432    345788899999999999987      468899999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHH---HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          229 RIFRKMQSNGIAPNAFSY---NLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~ty---n~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      +.|+.+.+..  |+....   ..++..+...|++++|..+|+++.+. ...+...++.+..++.+.|++++|.+.+++..
T Consensus       151 ~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al  227 (291)
T 3mkr_A          151 KELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEAL  227 (291)
T ss_dssp             HHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999998863  553211   22334444568999999999999987 35578889999999999999999999999988


Q ss_pred             HCCCcccHHHHHHHHhccCCCCh
Q 047934          306 EKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       306 ~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      +.. .-+..++..+...+...|.
T Consensus       228 ~~~-p~~~~~l~~l~~~~~~~g~  249 (291)
T 3mkr_A          228 DKD-SGHPETLINLVVLSQHLGK  249 (291)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCC
Confidence            653 2245556666655555554

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=98.87  E-value=2.6e-07  Score=87.12  Aligned_cols=173  Identities=15%  Similarity=0.062  Sum_probs=135.4

Q ss_pred             CCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      ..|++++|.++|+++.+..-.  ..+..+...|.+.|++++|.+.|+.+.+.. +-+...|..+-..+...|++++|...
T Consensus       147 ~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~  225 (388)
T 1w3b_A          147 ALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAA  225 (388)
T ss_dssp             TTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHH
T ss_pred             HccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            357788888888887765321  113456777888888888888888887753 23567788888888888888888888


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCc
Q 047934          231 FRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFL  310 (344)
Q Consensus       231 f~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~  310 (344)
                      |++..... .-+..+|..+..+|.+.|++++|.+.|+++.+.. .-+..+|..+...|.+.|++++|.++++.+.+.. .
T Consensus       226 ~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p  302 (388)
T 1w3b_A          226 YLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-P  302 (388)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-c
Confidence            88877642 2257889999999999999999999999998863 2257789999999999999999999999998763 4


Q ss_pred             ccHHHHHHHHhccCCCChH
Q 047934          311 VNDKAVREFLDKKAPFSSS  329 (344)
Q Consensus       311 p~~~~~~~Ll~~yak~g~~  329 (344)
                      .+..++..+...|.+.|..
T Consensus       303 ~~~~~~~~l~~~~~~~g~~  321 (388)
T 1w3b_A          303 THADSLNNLANIKREQGNI  321 (388)
T ss_dssp             TCHHHHHHHHHHHHTTTCH
T ss_pred             ccHHHHHHHHHHHHHcCCH
Confidence            4677888888888877753

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=98.85  E-value=1.2e-07  Score=90.72  Aligned_cols=174  Identities=13%  Similarity=0.020  Sum_probs=134.4

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A  227 (344)
                      .++..|++++|+++|+++.+..-.  ..+..+..+|...|++++|+++|+.+.+.+ +.+..++..+..+|.+.|++++|
T Consensus        35 ~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  113 (450)
T 2y4t_A           35 KLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEA  113 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHH
Confidence            445578899999999998875321  113357888899999999999999988764 33688899999999999999999


Q ss_pred             HHHHHHHHHCCCCCCH----HHHHHHHHH------------HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 047934          228 KRIFRKMQSNGIAPNA----FSYNLLIQG------------LYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRE  291 (344)
Q Consensus       228 ~~vf~~M~~~gi~pd~----~tyn~LI~a------------y~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~  291 (344)
                      ..+|+.+.+.  .|+.    ..|..++..            |.+.|++++|+++|+++.+.. ..+..++..+..+|...
T Consensus       114 ~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  190 (450)
T 2y4t_A          114 EDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKE  190 (450)
T ss_dssp             HHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhc--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHC
Confidence            9999999875  3443    566666444            888999999999999988753 33678888888999999


Q ss_pred             CCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          292 RGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       292 G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      |++++|.+++..+.+.. ..+..++..+...|...|.
T Consensus       191 g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~  226 (450)
T 2y4t_A          191 GEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGD  226 (450)
T ss_dssp             TCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            99999999999887652 2245677777777776665

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=98.85  E-value=4.5e-07  Score=79.78  Aligned_cols=155  Identities=16%  Similarity=0.029  Sum_probs=129.0

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIP--NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIP-EVVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~p-d~~tyn~LI~ay~k~g~~e~A  227 (344)
                      +...|++++|.++|+++.+..-..  .+..+...|...|++++|.++|+.+.+.+..| +..++..+..+|...|++++|
T Consensus        81 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  160 (252)
T 2ho1_A           81 FQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQA  160 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHH
Confidence            344789999999999988754221  12357788999999999999999988743444 567888999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          228 KRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       228 ~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      ...|+++.+.. ..+...|..+...|.+.|++++|.++|++..+.. ..+...+..+...+...|+.++|.++++.+.+.
T Consensus       161 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          161 KEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            99999988753 2368889999999999999999999999987643 346778888899999999999999999999875

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=98.83  E-value=4.4e-07  Score=74.94  Aligned_cols=153  Identities=14%  Similarity=0.063  Sum_probs=126.7

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLIP--NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKR  229 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~  229 (344)
                      ...|++++|.++|+++.+..-..  .+..+...|...|++++|.++|+.+.+.. +.+..++..+...|...|++++|..
T Consensus        19 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~   97 (186)
T 3as5_A           19 AKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKYDLAVP   97 (186)
T ss_dssp             HHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHH
Confidence            34678999999999887643221  12357788889999999999999988763 3478889999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +|+.+.... ..+...|..+..+|.+.|++++|.+++++..... ..+..++..+...|...|+.++|.+.++...+.
T Consensus        98 ~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A           98 LLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            999988753 3477889999999999999999999999988764 336788889999999999999999999987653

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

Probab=98.83  E-value=1.8e-07  Score=81.52  Aligned_cols=175  Identities=17%  Similarity=0.108  Sum_probs=107.4

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          149 RNEPISEPPQEADEIFKKMKETGLIP--NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDD  226 (344)
Q Consensus       149 ~~~~~sg~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~  226 (344)
                      ..+...|++++|..+|+++.+..-..  .+..+...|...|++++|+++|+...+.. +.+..++..+...|...|++++
T Consensus        31 ~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  109 (243)
T 2q7f_A           31 GRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKEMYKE  109 (243)
T ss_dssp             -----------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhccHHH
Confidence            34455677777777777776543211  11235666777778888888777776653 2356777777777777788888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          227 AKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       227 A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      |..+|+++.+.. ..+...|..+...|.+.|++++|.++++++.+.. ..+...+..+...|...|++++|.+++..+.+
T Consensus       110 A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  187 (243)
T 2q7f_A          110 AKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAAVTE  187 (243)
T ss_dssp             HHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            888777776643 2356677777777777788888887777776542 23566677777777777777777777777765


Q ss_pred             CCCcccHHHHHHHHhccCCCC
Q 047934          307 KGFLVNDKAVREFLDKKAPFS  327 (344)
Q Consensus       307 ~Gi~p~~~~~~~Ll~~yak~g  327 (344)
                      ..- .+..++..+...|.+.|
T Consensus       188 ~~~-~~~~~~~~la~~~~~~~  207 (243)
T 2q7f_A          188 QDP-GHADAFYNAGVTYAYKE  207 (243)
T ss_dssp             HCT-TCHHHHHHHHHHHHHTT
T ss_pred             hCc-ccHHHHHHHHHHHHHcc
Confidence            432 23445555555554444

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.80  E-value=6.3e-07  Score=69.72  Aligned_cols=129  Identities=17%  Similarity=0.214  Sum_probs=108.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 047934          176 AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK  255 (344)
Q Consensus       176 ~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k  255 (344)
                      +..+...|...|++++|..+|+.+.+.. +.+..++..+...+...|++++|..+|+++.... ..+...|..+...|..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            3456778889999999999999988764 3467888889999999999999999999988754 3367788899999999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          256 CNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       256 ~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      .|++++|.++|+++.... ..+..++..+...+...|+.++|.+.+..+.+.
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            999999999999988753 235778888999999999999999999988754

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

Probab=98.80  E-value=8.9e-07  Score=75.73  Aligned_cols=166  Identities=12%  Similarity=-0.000  Sum_probs=131.9

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHc-CCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIP--NAVAMLDGLCKD-GLIQEAMKLFGLMREKGTIP-EVVIYTAVVDGFCKAQKFDD  226 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~-g~~~~A~~lf~~M~~~g~~p-d~~tyn~LI~ay~k~g~~e~  226 (344)
                      +...|++++|.++|++..+..-..  .+..+...|... |++++|..+|+.+.+.+..| +..++..+..+|...|++++
T Consensus        52 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  131 (225)
T 2vq2_A           52 YQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGL  131 (225)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHH
Confidence            344788999999999988754221  123577888899 99999999999998843333 36888999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          227 AKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       227 A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      |...|+++.+.. ..+...|..+..+|.+.|++++|.+++++.....-..+...+..+...+...|+.+.+..++..+.+
T Consensus       132 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          132 AEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            999999998753 2358889999999999999999999999988754224677788888888999999999999999875


Q ss_pred             CCCcccHHHHHHH
Q 047934          307 KGFLVNDKAVREF  319 (344)
Q Consensus       307 ~Gi~p~~~~~~~L  319 (344)
                      .  .|+...+..+
T Consensus       211 ~--~p~~~~~~~~  221 (225)
T 2vq2_A          211 N--FPYSEELQTV  221 (225)
T ss_dssp             H--CTTCHHHHHH
T ss_pred             h--CCCCHHHHHH
Confidence            4  3444444433

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.75  E-value=4.3e-07  Score=79.45  Aligned_cols=176  Identities=13%  Similarity=0.072  Sum_probs=128.5

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCC----HHHHHHHHHHHHHcCC
Q 047934          151 EPISEPPQEADEIFKKMKETGLIPN-AVAMLDGLCKDGLIQEAMKLFGLMREKG--TIPE----VVIYTAVVDGFCKAQK  223 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p~-~~tli~~~~k~g~~~~A~~lf~~M~~~g--~~pd----~~tyn~LI~ay~k~g~  223 (344)
                      ++..|++++|.++|++..+..-.+. +..+...|...|++++|.+.|+...+..  ..++    ..+|..+-..|...|+
T Consensus        15 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   94 (258)
T 3uq3_A           15 FYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGD   94 (258)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHccc
Confidence            3446789999999998877661111 2346778888899999999998876542  2222    5788888888999999


Q ss_pred             HHHHHHHHHHHHHCC------------------------CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH
Q 047934          224 FDDAKRIFRKMQSNG------------------------IAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNV  278 (344)
Q Consensus       224 ~e~A~~vf~~M~~~g------------------------i~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~  278 (344)
                      +++|...|++.....                        ..| +...|..+...|...|++++|.+.|++..... ..+.
T Consensus        95 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~  173 (258)
T 3uq3_A           95 LKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDA  173 (258)
T ss_dssp             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccH
Confidence            999999988887631                        122 34567788888888999999999998887753 2357


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          279 TTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       279 ~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      .+|..+...|...|++++|.+.++...+.. ..+...+..+-..|.+.|.
T Consensus       174 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~  222 (258)
T 3uq3_A          174 RGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKE  222 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhh
Confidence            788888888889999999999998887753 2235566666666666654

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

Probab=98.75  E-value=5.8e-10  Score=109.36  Aligned_cols=152  Identities=13%  Similarity=0.111  Sum_probs=41.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKR  229 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~  229 (344)
                      .+...|++++|++.|.+..  + ...+..++.++...|++++|..+++..++.  .+++.+.+.|+.+|+++|+++++++
T Consensus        41 A~l~~g~~~eAIdsfika~--D-~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~  115 (449)
T 1b89_A           41 AQLQKGMVKEAIDSYIKAD--D-PSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEE  115 (449)
T ss_dssp             -------------------------------------------------------------------------CHHHHTT
T ss_pred             HHHHcCCHHHHHHHHHcCC--C-HHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHH
Confidence            3333555666666664321  1 112334555666666666666644443332  3345556666666666666666666


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 047934          230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGF  309 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi  309 (344)
                      +++       .|+..+|..+.+.|...|.+++|..+|..+         ..|..+..++.+.|++++|.+.+..+     
T Consensus       116 f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA-----  174 (449)
T 1b89_A          116 FIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA-----  174 (449)
T ss_dssp             TTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH-----
T ss_pred             HHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc-----
Confidence            553       245556666666666666666666666654         25666666666666666666666665     


Q ss_pred             cccHHHHHHHHhccCCCCh
Q 047934          310 LVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       310 ~p~~~~~~~Ll~~yak~g~  328 (344)
                       -+..+|..++.+|...|.
T Consensus       175 -~~~~~Wk~v~~aCv~~~e  192 (449)
T 1b89_A          175 -NSTRTWKEVCFACVDGKE  192 (449)
T ss_dssp             -TCHHHHHHHHHHHHHTTC
T ss_pred             -CCchhHHHHHHHHHHcCc
Confidence             255666666666666554

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

Probab=98.74  E-value=2e-06  Score=75.24  Aligned_cols=172  Identities=9%  Similarity=-0.043  Sum_probs=138.8

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCC-C-CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc--------
Q 047934          152 PISEPPQEADEIFKKMKETGLI-P-NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKA--------  221 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~-p-~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~--------  221 (344)
                      ...|++++|...|++..+.+-. + -+..+-..|.+.|++++|+..|+...+.. +-+...+..+-.+|...        
T Consensus        16 ~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~   94 (217)
T 2pl2_A           16 YALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAYVALYRQAEDRE   94 (217)
T ss_dssp             HHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHTCSSHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhhhhhhhhc
Confidence            4478899999999998865321 1 12346778889999999999999988763 33678899999999999        


Q ss_pred             ---CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          222 ---QKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQ  298 (344)
Q Consensus       222 ---g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~  298 (344)
                         |++++|...|++..+.. +-+...|..+-.+|...|++++|+..|++..+..  .+...+..+-..|...|++++|.
T Consensus        95 ~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~  171 (217)
T 2pl2_A           95 RGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEAL  171 (217)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             ccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHH
Confidence               99999999999988753 2257889999999999999999999999999887  68899999999999999999999


Q ss_pred             HHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          299 SVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       299 ~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      ..++...+.. .-+...+..+-..+...|.
T Consensus       172 ~~~~~al~~~-P~~~~~~~~la~~~~~~g~  200 (217)
T 2pl2_A          172 AQYAKALEQA-PKDLDLRVRYASALLLKGK  200 (217)
T ss_dssp             HHHHHHHHHS-TTCHHHHHHHHHHHTC---
T ss_pred             HHHHHHHHhC-CCChHHHHHHHHHHHHccC
Confidence            9999988752 2245666667677777765

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

Probab=98.73  E-value=1.9e-06  Score=79.84  Aligned_cols=176  Identities=11%  Similarity=-0.056  Sum_probs=133.1

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIP--NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A  227 (344)
                      .++..|++++|..+|+++.+..-.-  .+..+...|...|++++|.+.|+.+.+.. +.+..++..+...|...|++++|
T Consensus        73 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A  151 (368)
T 1fch_A           73 RRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQA  151 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            3445788999999999998764221  12357788889999999999999988764 34788899999999999999999


Q ss_pred             HHHHHHHHHCCC-----------------------------------------------CC---CHHHHHHHHHHHHHcC
Q 047934          228 KRIFRKMQSNGI-----------------------------------------------AP---NAFSYNLLIQGLYKCN  257 (344)
Q Consensus       228 ~~vf~~M~~~gi-----------------------------------------------~p---d~~tyn~LI~ay~k~g  257 (344)
                      ...|+.+.....                                               .|   +..+|..+...|.+.|
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g  231 (368)
T 1fch_A          152 CEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSG  231 (368)
T ss_dssp             HHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcC
Confidence            998888766421                                               12   4678888888889999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      ++++|.+.|+++.... ..+..+|..+...|...|++++|.+.++.+.+.. ..+..++..+-..|.+.|.
T Consensus       232 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~  300 (368)
T 1fch_A          232 EYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGA  300 (368)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCC
Confidence            9999999998887652 2357788888888889999999999998887653 2234556666666555554

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

Probab=98.73  E-value=1.1e-06  Score=76.30  Aligned_cols=155  Identities=12%  Similarity=0.022  Sum_probs=130.0

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIP--NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A  227 (344)
                      .+...|++++|.++|++..+..-..  .+..+...|...|++++|.++|+.+.+.. +.+..++..+...|.+.|++++|
T Consensus        66 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A  144 (243)
T 2q7f_A           66 LLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLA  144 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHH
Confidence            3445788999999999988754221  12357788899999999999999988764 34788899999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          228 KRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       228 ~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      ..+++++.+.. ..+...|..+...|.+.|++++|.+.|++..... ..+..++..+...|...|+.++|.+.++.+.+.
T Consensus       145 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          145 LPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            99999988753 2368889999999999999999999999988763 335788999999999999999999999998875

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

Probab=98.71  E-value=7.1e-07  Score=83.25  Aligned_cols=174  Identities=8%  Similarity=-0.111  Sum_probs=123.9

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      ++..|++++|+++|+++.+..-.  ..+..+...|.+.|++++|+++|+...+.. +.+..+|..+..+|...|++++|.
T Consensus        75 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~  153 (365)
T 4eqf_A           75 RLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQQDAC  153 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccHHHHH
Confidence            34467888999999888765321  113357788888888999998888887653 335788888888888888888888


Q ss_pred             HHHHHHHHCCC------------------------------------------CC---CHHHHHHHHHHHHHcCCHHHHH
Q 047934          229 RIFRKMQSNGI------------------------------------------AP---NAFSYNLLIQGLYKCNKLEEAV  263 (344)
Q Consensus       229 ~vf~~M~~~gi------------------------------------------~p---d~~tyn~LI~ay~k~g~~~~A~  263 (344)
                      .+|+++.+..-                                          .|   +..+|..+...|.+.|++++|+
T Consensus       154 ~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~  233 (365)
T 4eqf_A          154 EALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAI  233 (365)
T ss_dssp             HHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHH
Confidence            88887754210                                          11   5677888888888888888888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCC
Q 047934          264 EYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFS  327 (344)
Q Consensus       264 ~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g  327 (344)
                      ++|++..+.. ..+..+|..+..+|...|++++|.+.++.+.+.. .-+..++..+-..|...|
T Consensus       234 ~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  295 (365)
T 4eqf_A          234 DAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLG  295 (365)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCC
Confidence            8888877652 2357778888888888888888888888877652 112455555555554444

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

Probab=98.70  E-value=1.3e-08  Score=99.90  Aligned_cols=158  Identities=13%  Similarity=0.108  Sum_probs=71.0

Q ss_pred             cccccCCCCCCCCCHHHHHHHHHHHHHCCCCC-C-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 047934          143 QEQKPNRNEPISEPPQEADEIFKKMKETGLIP-N-AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCK  220 (344)
Q Consensus       143 ~y~~~~~~~~~sg~~~~A~~lf~~M~~~gi~p-~-~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k  220 (344)
                      .|...++.+...|++++|+++++...+. ... . .+.++.+|.+.|+++++.++++       .|+..+|+.+-+.|..
T Consensus        63 ~y~~V~~~ae~~g~~EeAi~yl~~ark~-~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~  134 (449)
T 1b89_A           63 SYMEVVQAANTSGNWEELVKYLQMARKK-ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYD  134 (449)
T ss_dssp             -----------------------------------------------CHHHHTTTTT-------CC--------------
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHh-CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHH
Confidence            3444444555578899999977766653 221 1 2358889999999999888885       3677799999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          221 AQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSV  300 (344)
Q Consensus       221 ~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l  300 (344)
                      .|.+++|...|..+         ..|..|..++++.|++++|.+.+.++      -+..||..++.+|...|+++.|...
T Consensus       135 ~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~  199 (449)
T 1b89_A          135 EKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMC  199 (449)
T ss_dssp             --CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHT
T ss_pred             cCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHH
Confidence            99999999999876         27888888888888888888888877      2688888888888888888777443


Q ss_pred             HHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          301 IATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       301 ~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      ...     +.........++..|.+.|.
T Consensus       200 ~l~-----L~~~ad~l~~lv~~Yek~G~  222 (449)
T 1b89_A          200 GLH-----IVVHADELEELINYYQDRGY  222 (449)
T ss_dssp             TTT-----TTTCHHHHHHHHHHHHHTTC
T ss_pred             HHH-----HHhCHhhHHHHHHHHHHCCC
Confidence            332     22222333456666666654

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

Probab=98.69  E-value=2e-06  Score=78.05  Aligned_cols=175  Identities=8%  Similarity=-0.084  Sum_probs=139.1

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC-CHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQ-KFDD  226 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g-~~e~  226 (344)
                      .++..|++++|+++|+++.+..-.  ..+..+...+...|++++|..+++.+.+.. +-+..+|..+-..|...| ++++
T Consensus        31 ~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~  109 (330)
T 3hym_B           31 RHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEH  109 (330)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHH
Confidence            344468999999999998875422  123457888899999999999999988753 336788899999999999 9999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          227 AKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       227 A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      |...|++..+.. .-+...|..+..+|...|++++|.+.|++.....- .+...+..+...|...|++++|.+++....+
T Consensus       110 A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  187 (330)
T 3hym_B          110 ARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNNSKLAERFFSQALS  187 (330)
T ss_dssp             HHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            999999998763 23577899999999999999999999999887642 2456677788899999999999999999887


Q ss_pred             CCCcccHHHHHHHHhccCCCCh
Q 047934          307 KGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       307 ~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      .. ..+..++..+...|...|.
T Consensus       188 ~~-~~~~~~~~~l~~~~~~~~~  208 (330)
T 3hym_B          188 IA-PEDPFVMHEVGVVAFQNGE  208 (330)
T ss_dssp             TC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hC-CCChHHHHHHHHHHHHccc
Confidence            64 2245666666666666664

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

Probab=98.68  E-value=7.3e-07  Score=80.87  Aligned_cols=175  Identities=10%  Similarity=-0.021  Sum_probs=133.9

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCC-CHHHHH--------------H--HHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETGLIP-NAVAML--------------D--GLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVV  215 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~p-~~~tli--------------~--~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI  215 (344)
                      ..|++++|.+.|+++.+..-.. .....+              .  .+...|++++|.++++.+.+.. +.+..++..+.
T Consensus       101 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la  179 (327)
T 3cv0_A          101 NEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLG  179 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            3567777777777776543110 011111              2  2677789999999999988764 33789999999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          216 DGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVE  295 (344)
Q Consensus       216 ~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e  295 (344)
                      ..|.+.|++++|..+|+++.+.. ..+..+|..+...|...|++++|.+.|++..+.. ..+..++..+...|...|+++
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            99999999999999999988753 3367899999999999999999999999988753 236788999999999999999


Q ss_pred             HHHHHHHHHHHCCCcc-----------cHHHHHHHHhccCCCChHH
Q 047934          296 KAQSVIATLKEKGFLV-----------NDKAVREFLDKKAPFSSSV  330 (344)
Q Consensus       296 ~a~~l~~~M~~~Gi~p-----------~~~~~~~Ll~~yak~g~~~  330 (344)
                      +|.+.++.+.+..-..           +..++..+...|.+.|...
T Consensus       258 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  303 (327)
T 3cv0_A          258 LAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPD  303 (327)
T ss_dssp             HHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHH
Confidence            9999999987653221           4667777777777777643

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.68  E-value=7.4e-06  Score=68.71  Aligned_cols=157  Identities=11%  Similarity=0.007  Sum_probs=129.0

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          148 NRNEPISEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFD  225 (344)
Q Consensus       148 ~~~~~~sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e  225 (344)
                      +..+...|++++|++.|++..+.+-.  ..+..+-..|.+.|++++|...+........ -+...+..+-..+...++++
T Consensus        12 G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~   90 (184)
T 3vtx_A           12 GDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILGSANFMIDEKQ   90 (184)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHHHHHHHcCCHH
Confidence            33445578999999999998875421  1123577888999999999999998877643 36778888888999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          226 DAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       226 ~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      .|...+....... .-+...|..+-.+|.+.|++++|++.|++..+.. +-+..+|..+-..|.+.|++++|.+.|+...
T Consensus        91 ~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  168 (184)
T 3vtx_A           91 AAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAVKYFKKAL  168 (184)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            9999999987753 3367889999999999999999999999988753 2367889999999999999999999999987


Q ss_pred             HC
Q 047934          306 EK  307 (344)
Q Consensus       306 ~~  307 (344)
                      +.
T Consensus       169 ~~  170 (184)
T 3vtx_A          169 EK  170 (184)
T ss_dssp             HT
T ss_pred             hC
Confidence            64

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

Probab=98.66  E-value=2.3e-06  Score=77.66  Aligned_cols=152  Identities=11%  Similarity=-0.006  Sum_probs=84.8

Q ss_pred             CC-CHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          154 SE-PPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       154 sg-~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      .| ++++|.+.|++..+..-.  ..+..+...|...|++++|.+.|+...+..- .+..++..+...|...|++++|...
T Consensus       103 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~  181 (330)
T 3hym_B          103 VGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNNSKLAERF  181 (330)
T ss_dssp             SCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhHHHHHHH
Confidence            45 566666666666543311  1133455566666666666666666555421 1334455566666666666666666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--------CCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047934          231 FRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG--------HSPNVTTFVGLVDGLCRERGVEKAQSVIA  302 (344)
Q Consensus       231 f~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g--------v~pd~~ty~~lL~a~~~~G~~e~a~~l~~  302 (344)
                      |++..+.. ..+...|..+...|.+.|++++|...|++.....        ...+..++..+...|...|++++|.+.++
T Consensus       182 ~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  260 (330)
T 3hym_B          182 FSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHR  260 (330)
T ss_dssp             HHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            66665542 2245566666666666666666666666655421        12234455566666666666666666666


Q ss_pred             HHHHC
Q 047934          303 TLKEK  307 (344)
Q Consensus       303 ~M~~~  307 (344)
                      ...+.
T Consensus       261 ~a~~~  265 (330)
T 3hym_B          261 QALVL  265 (330)
T ss_dssp             HHHHH
T ss_pred             HHHhh
Confidence            65543

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

Probab=98.66  E-value=5.2e-07  Score=83.74  Aligned_cols=174  Identities=16%  Similarity=0.048  Sum_probs=134.0

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCHH---H--------------HHHHHHHcCCHHHHHHHHHHHHHcCCC-CCHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETGLIPNAV---A--------------MLDGLCKDGLIQEAMKLFGLMREKGTI-PEVVIYTAV  214 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~p~~~---t--------------li~~~~k~g~~~~A~~lf~~M~~~g~~-pd~~tyn~L  214 (344)
                      ..|++++|.+.|+++.+..-.....   .              .+..+...|++++|.++|+.+.+..-. ++..++..+
T Consensus       144 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l  223 (368)
T 1fch_A          144 NESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGL  223 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHH
Confidence            3567777777777776643211000   0              245555889999999999999876422 268999999


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Q 047934          215 VDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGV  294 (344)
Q Consensus       215 I~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~  294 (344)
                      ..+|.+.|++++|...|+++.+.. ..+..+|..+...|.+.|++++|.+.|++..... ..+..++..+...|.+.|++
T Consensus       224 ~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~  301 (368)
T 1fch_A          224 GVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAH  301 (368)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCH
Confidence            999999999999999999988753 3357899999999999999999999999988753 33678899999999999999


Q ss_pred             HHHHHHHHHHHHCCCc----------ccHHHHHHHHhccCCCCh
Q 047934          295 EKAQSVIATLKEKGFL----------VNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       295 e~a~~l~~~M~~~Gi~----------p~~~~~~~Ll~~yak~g~  328 (344)
                      ++|.+.++.+.+..-.          ....++..+...|...|.
T Consensus       302 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  345 (368)
T 1fch_A          302 REAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQ  345 (368)
T ss_dssp             HHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCC
Confidence            9999999988764211          125677777777766664

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.66  E-value=1.6e-06  Score=76.74  Aligned_cols=153  Identities=12%  Similarity=-0.035  Sum_probs=124.4

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCC------HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIPN------AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKF  224 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p~------~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~  224 (344)
                      ....|++++|+++|+++.+.....+      +..+...|...|++++|.+.|+...+.. +.+..+|..+-..|...|++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCH
Confidence            3456899999999999998632211      2247888889999999999999988763 34789999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          225 DDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       225 e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      ++|...|++..+.. ..+...|..+..+|.+.|++++|.+.|+++.+.  .|+...+...+..+...|+.++|..++...
T Consensus        94 ~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           94 DAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            99999999998853 225789999999999999999999999999875  355555555666667789999999999776


Q ss_pred             HHC
Q 047934          305 KEK  307 (344)
Q Consensus       305 ~~~  307 (344)
                      ...
T Consensus       171 ~~~  173 (275)
T 1xnf_A          171 FEK  173 (275)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            654

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

Probab=98.63  E-value=9.9e-07  Score=82.24  Aligned_cols=174  Identities=15%  Similarity=0.042  Sum_probs=132.4

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCC----H----------HHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CCHHHHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIPN----A----------VAMLDGLCKDGLIQEAMKLFGLMREKGTI-PEVVIYTAVV  215 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p~----~----------~tli~~~~k~g~~~~A~~lf~~M~~~g~~-pd~~tyn~LI  215 (344)
                      +...|++++|+++|+++.+..  |+    +          ..+...|.+.|++++|.++|+.+.+..-. .+..++..+.
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            344788999999999887642  11    1          12467888899999999999999876422 2689999999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          216 DGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVE  295 (344)
Q Consensus       216 ~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e  295 (344)
                      ..|...|++++|...|++..+.. ..+..+|..+..+|.+.|++++|++.|++..+.. .-+..++..+...|...|+++
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            99999999999999999998753 3368899999999999999999999999988763 235888999999999999999


Q ss_pred             HHHHHHHHHHHCC---Cc--------ccHHHHHHHHhccCCCCh
Q 047934          296 KAQSVIATLKEKG---FL--------VNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       296 ~a~~l~~~M~~~G---i~--------p~~~~~~~Ll~~yak~g~  328 (344)
                      +|.+.++.+.+..   ..        .+..++..|-..+...|.
T Consensus       299 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  342 (365)
T 4eqf_A          299 EAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQ  342 (365)
T ss_dssp             HHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCc
Confidence            9999999987642   11        124566666666655554

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.62  E-value=1.2e-05  Score=72.05  Aligned_cols=144  Identities=11%  Similarity=0.008  Sum_probs=73.4

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHH
Q 047934          155 EPPQEADEIFKKMKETGLIPNAVAMLDGLCK----DGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCK----AQKFDD  226 (344)
Q Consensus       155 g~~~~A~~lf~~M~~~gi~p~~~tli~~~~k----~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k----~g~~e~  226 (344)
                      |++++|.+.|++..+.+....+..+-..|..    .+++++|++.|+...+.+   +...+..|-.+|..    .+++++
T Consensus        20 ~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~   96 (273)
T 1ouv_A           20 KDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNK   96 (273)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHH
Confidence            4555555555555553322112233444444    555555555555555443   44555555555555    555555


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHH
Q 047934          227 AKRIFRKMQSNGIAPNAFSYNLLIQGLYK----CNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCR----ERGVEKAQ  298 (344)
Q Consensus       227 A~~vf~~M~~~gi~pd~~tyn~LI~ay~k----~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~----~G~~e~a~  298 (344)
                      |...|++..+.+   +...+..+-..|..    .++.++|++.|++..+.+   +...+..+-..|..    .++.++|.
T Consensus        97 A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~  170 (273)
T 1ouv_A           97 ALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKAL  170 (273)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHH
Confidence            555555555543   44555555555555    555555555555555543   34444444444444    55555555


Q ss_pred             HHHHHHHHC
Q 047934          299 SVIATLKEK  307 (344)
Q Consensus       299 ~l~~~M~~~  307 (344)
                      +.++...+.
T Consensus       171 ~~~~~a~~~  179 (273)
T 1ouv_A          171 ASYDKACDL  179 (273)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHC
Confidence            555555444

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

Probab=98.60  E-value=1.5e-06  Score=78.85  Aligned_cols=151  Identities=5%  Similarity=-0.082  Sum_probs=125.4

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIP--NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      +...|++++|.++++++.+..-..  .+..+...|.+.|++++|.++|+.+.+.. +.+..++..+...|...|++++|.
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  226 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEAL  226 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHH
Confidence            455778999999999988754321  12357888999999999999999988763 346889999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-----------CHHHHHHHHHHHHHcCCHHHH
Q 047934          229 RIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP-----------NVTTFVGLVDGLCRERGVEKA  297 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~p-----------d~~ty~~lL~a~~~~G~~e~a  297 (344)
                      ..|+++.+.. ..+..+|..+..+|.+.|++++|.+.|++.....-..           +..+|..+..+|...|+.++|
T Consensus       227 ~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  305 (327)
T 3cv0_A          227 DAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLV  305 (327)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHH
Confidence            9999987753 2367899999999999999999999999987653221           477888999999999999999


Q ss_pred             HHHHHH
Q 047934          298 QSVIAT  303 (344)
Q Consensus       298 ~~l~~~  303 (344)
                      ..++..
T Consensus       306 ~~~~~~  311 (327)
T 3cv0_A          306 ELTYAQ  311 (327)
T ss_dssp             HHHTTC
T ss_pred             HHHHHH
Confidence            998874

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.59  E-value=2.1e-06  Score=75.03  Aligned_cols=156  Identities=12%  Similarity=0.128  Sum_probs=126.9

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCC--CCCC-------HHHHHHHHHHcCCHHHHHHHHHHHHHcC-----------------
Q 047934          150 NEPISEPPQEADEIFKKMKETG--LIPN-------AVAMLDGLCKDGLIQEAMKLFGLMREKG-----------------  203 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~g--i~p~-------~~tli~~~~k~g~~~~A~~lf~~M~~~g-----------------  203 (344)
                      .+...|++++|.+.|++..+..  ..++       +..+...|...|++++|.+.|+...+..                 
T Consensus        47 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~  126 (258)
T 3uq3_A           47 AEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELK  126 (258)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHH
Confidence            3444788999999999877642  2222       2357788889999999999999887732                 


Q ss_pred             -------C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Q 047934          204 -------T-IPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS  275 (344)
Q Consensus       204 -------~-~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~  275 (344)
                             . +-+..++..+...|...|++++|...|++..+.. ..+..+|..+..+|.+.|++++|.+.|++..+.. .
T Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~  204 (258)
T 3uq3_A          127 KAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-P  204 (258)
T ss_dssp             HHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-H
Confidence                   1 2245678889999999999999999999998753 3368899999999999999999999999998763 3


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          276 PNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       276 pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      .+..+|..+...+...|+.++|.+.++...+.
T Consensus       205 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          205 NFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            35788999999999999999999999988764

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

Probab=98.58  E-value=1.7e-06  Score=79.83  Aligned_cols=148  Identities=20%  Similarity=0.148  Sum_probs=116.9

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH---HHHHHHHHHHcCCHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLIPN-AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVI---YTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~-~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~t---yn~LI~ay~k~g~~e~A  227 (344)
                      ...|++++|++++++    +-.+. +..+...|.+.|+.++|.+.|+.+.+..  |+...   ..+++..+...|++++|
T Consensus       112 ~~~g~~~~Al~~l~~----~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA  185 (291)
T 3mkr_A          112 FYDQNPDAALRTLHQ----GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDA  185 (291)
T ss_dssp             HHTTCHHHHHHHHTT----CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHH
T ss_pred             HHCCCHHHHHHHHhC----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHH
Confidence            347889999999988    11111 2357788999999999999999998874  44321   13344555556899999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH-HHHHHHHHHH
Q 047934          228 KRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEK-AQSVIATLKE  306 (344)
Q Consensus       228 ~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~-a~~l~~~M~~  306 (344)
                      ..+|+++.+. ...+...|+.+-.+|.+.|++++|.+.|++..+.. .-+..++..+...+...|+.++ +.++++.+.+
T Consensus       186 ~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          186 YYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             HHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            9999999887 35588899999999999999999999999988753 2367889999999999999865 6788888776


Q ss_pred             C
Q 047934          307 K  307 (344)
Q Consensus       307 ~  307 (344)
                      .
T Consensus       264 ~  264 (291)
T 3mkr_A          264 A  264 (291)
T ss_dssp             H
T ss_pred             h
Confidence            4

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

Probab=98.56  E-value=2.7e-06  Score=82.32  Aligned_cols=174  Identities=10%  Similarity=-0.133  Sum_probs=129.4

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCHH---HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDD  226 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~~~---tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~  226 (344)
                      .++..|++++|++.|+++.+.+  |+..   .+..+|.+.|++++|++.|+.+.+.. +-+..+|..+..+|.+.|++++
T Consensus        15 ~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~   91 (514)
T 2gw1_A           15 QFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFAD   91 (514)
T ss_dssp             HHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHH
Confidence            3445789999999999999866  5543   47888999999999999999998764 4467899999999999999999


Q ss_pred             HHHHHHHHHHCCCC------------------------------------------------------------------
Q 047934          227 AKRIFRKMQSNGIA------------------------------------------------------------------  240 (344)
Q Consensus       227 A~~vf~~M~~~gi~------------------------------------------------------------------  240 (344)
                      |...|+.+...+-.                                                                  
T Consensus        92 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  171 (514)
T 2gw1_A           92 AMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIF  171 (514)
T ss_dssp             HHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTS
T ss_pred             HHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhc
Confidence            99999998765410                                                                  


Q ss_pred             -----------C-CHHHHHHHHHHHHH---cCCHHHHHHHHHHHHH-----cCCCC--------CHHHHHHHHHHHHHcC
Q 047934          241 -----------P-NAFSYNLLIQGLYK---CNKLEEAVEYCIEMLE-----AGHSP--------NVTTFVGLVDGLCRER  292 (344)
Q Consensus       241 -----------p-d~~tyn~LI~ay~k---~g~~~~A~~lf~~M~~-----~gv~p--------d~~ty~~lL~a~~~~G  292 (344)
                                 | +...|..+..++..   .|++++|..+|+++..     ..-.|        +..++..+...+...|
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (514)
T 2gw1_A          172 KPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKN  251 (514)
T ss_dssp             CCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             CHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCC
Confidence                       0 02233333333333   7899999999999887     31122        3456777888888999


Q ss_pred             CHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          293 GVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       293 ~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      ++++|.++++.+.+..-.  ...+..+...|...|.
T Consensus       252 ~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~  285 (514)
T 2gw1_A          252 DPLGAHEDIKKAIELFPR--VNSYIYMALIMADRND  285 (514)
T ss_dssp             CHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSC
T ss_pred             CHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCC
Confidence            999999999998876433  6666666666665553

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.54  E-value=2.2e-05  Score=70.21  Aligned_cols=147  Identities=8%  Similarity=0.004  Sum_probs=126.6

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAVAMLDGLCK----DGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCK----AQKFD  225 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k----~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k----~g~~e  225 (344)
                      .+++++|.+.|++..+.+....+..+-..|..    .++.++|++.|+...+.+   +..++..|-..|..    .++++
T Consensus        55 ~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~  131 (273)
T 1ouv_A           55 EKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFK  131 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHH
Confidence            67899999999999988733223346667778    999999999999988875   78899999999999    99999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHH
Q 047934          226 DAKRIFRKMQSNGIAPNAFSYNLLIQGLYK----CNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCR----ERGVEKA  297 (344)
Q Consensus       226 ~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k----~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~----~G~~e~a  297 (344)
                      +|...|++..+.+   +...+..+-..|..    .++.++|++.|++..+.+   +...+..+-..|..    .++.++|
T Consensus       132 ~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A  205 (273)
T 1ouv_A          132 KAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEA  205 (273)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHH
T ss_pred             HHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            9999999999876   77788888888888    899999999999988875   56778888888888    9999999


Q ss_pred             HHHHHHHHHCCC
Q 047934          298 QSVIATLKEKGF  309 (344)
Q Consensus       298 ~~l~~~M~~~Gi  309 (344)
                      .+.++...+.+-
T Consensus       206 ~~~~~~a~~~~~  217 (273)
T 1ouv_A          206 LARYSKACELEN  217 (273)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHhCCC
Confidence            999999988754

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=98.51  E-value=5e-06  Score=68.44  Aligned_cols=147  Identities=14%  Similarity=0.055  Sum_probs=122.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      .+...+...|++++|.++|+.+.+. .+.+..++..+...|...|++++|...++.+.+.. ..+...|..+...|...|
T Consensus        13 ~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~   90 (186)
T 3as5_A           13 DKGISHAKAGRYSQAVMLLEQVYDA-DAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQ   90 (186)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTTTCCT-TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHh-CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhc
Confidence            4567788899999999999987654 23478899999999999999999999999988753 336788999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      ++++|.++|+++.... ..+...+..+...|...|++++|.++++.+.+.. ..+...+..+...|...|.
T Consensus        91 ~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~  159 (186)
T 3as5_A           91 KYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGR  159 (186)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCC
Confidence            9999999999988763 3467888889999999999999999999988764 2345677777777776665

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

Probab=98.51  E-value=1.1e-05  Score=73.58  Aligned_cols=172  Identities=12%  Similarity=0.001  Sum_probs=123.9

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCC-C-CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLI-P-NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKR  229 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~-p-~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~  229 (344)
                      +..|++++|+.+|+++.+..-. + .+..+...|...|++++|...|+.+.+.. +-+..+|..+..+|...|++++|..
T Consensus        14 ~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~   92 (359)
T 3ieg_A           14 LAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDEAED   92 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHHHHH
Confidence            4467899999999988775322 1 12346777888899999999998887653 2367888888888999999999999


Q ss_pred             HHHHHHHCCCCC----CHHHHHHH------------HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 047934          230 IFRKMQSNGIAP----NAFSYNLL------------IQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERG  293 (344)
Q Consensus       230 vf~~M~~~gi~p----d~~tyn~L------------I~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~  293 (344)
                      .|+.+.+.  .|    +...|..+            ...|...|++++|.++|+++.+.. ..+...+..+...|...|+
T Consensus        93 ~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  169 (359)
T 3ieg_A           93 DFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGE  169 (359)
T ss_dssp             HHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCC
Confidence            99888765  34    33444444            477788888889988888887653 2356778888888888888


Q ss_pred             HHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          294 VEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       294 ~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      +++|.+.+..+.+.. ..+..++..+-..|...|.
T Consensus       170 ~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~  203 (359)
T 3ieg_A          170 PRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGD  203 (359)
T ss_dssp             HHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            888888888887653 2244555555555554443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.49  E-value=1.1e-05  Score=71.40  Aligned_cols=156  Identities=13%  Similarity=0.005  Sum_probs=120.4

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHcCCHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGL--IPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIP--EVVIYTAVVDGFCKAQKFD  225 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi--~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~p--d~~tyn~LI~ay~k~g~~e  225 (344)
                      .++..|++++|+++|++..+..-  ...+..+...|...|++++|++.|+...+..-.+  ...+|..+-..|...|+++
T Consensus        12 ~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~   91 (272)
T 3u4t_A           12 FLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDS   91 (272)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHH
Confidence            34567889999999999887542  2135567888999999999999999988743222  2455888999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          226 DAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       226 ~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      +|...|+...+..- -+...|..+-..|...|++++|.+.|++..+. -.-+...|..+-..+...+++++|.+.++.+.
T Consensus        92 ~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  169 (272)
T 3u4t_A           92 LAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP-TTTDPKVFYELGQAYYYNKEYVKADSSFVKVL  169 (272)
T ss_dssp             HHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc-CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999887532 25678999999999999999999999887765 22345566655534555669999999999887


Q ss_pred             HC
Q 047934          306 EK  307 (344)
Q Consensus       306 ~~  307 (344)
                      +.
T Consensus       170 ~~  171 (272)
T 3u4t_A          170 EL  171 (272)
T ss_dssp             HH
T ss_pred             Hh
Confidence            65

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.47  E-value=1.6e-06  Score=76.51  Aligned_cols=157  Identities=17%  Similarity=0.033  Sum_probs=120.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHHC------CCCCCH----HHHHHHHHHcCCHHHHHHHHHHHHHc------C-CCCCHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKET------GLIPNA----VAMLDGLCKDGLIQEAMKLFGLMREK------G-TIPEVVIYT  212 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~------gi~p~~----~tli~~~~k~g~~~~A~~lf~~M~~~------g-~~pd~~tyn  212 (344)
                      .+...|++++|++.|++..+.      +-.|..    ..+-..|...|++++|.++|....+.      . .+....++.
T Consensus        52 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  131 (283)
T 3edt_B           52 VYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLN  131 (283)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHH
Confidence            445578999999999988764      223322    24778888999999999999987654      1 123467888


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC------CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-------------
Q 047934          213 AVVDGFCKAQKFDDAKRIFRKMQSN------GIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA-------------  272 (344)
Q Consensus       213 ~LI~ay~k~g~~e~A~~vf~~M~~~------gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~-------------  272 (344)
                      .+-..|...|++++|..+|++..+.      +-.| ...+|..+...|.+.|++++|.++|++..+.             
T Consensus       132 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~  211 (283)
T 3edt_B          132 NLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDN  211 (283)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhH
Confidence            9999999999999999999998764      1122 3567889999999999999999999987753             


Q ss_pred             -----------------------------------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          273 -----------------------------------GHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       273 -----------------------------------gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                                                         .......++..+...|...|++++|.++++...+
T Consensus       212 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          212 KPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             CCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                                               0111234577788888899999999999988764

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.47  E-value=7.7e-06  Score=63.32  Aligned_cols=118  Identities=20%  Similarity=0.217  Sum_probs=98.4

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETGLIP--NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      ..|++++|.++|+++.+.+-..  .+..+...+...|++++|..+|+.+.+.. +.+..++..+...|...|++++|.++
T Consensus        13 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~   91 (136)
T 2fo7_A           13 KQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEY   91 (136)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHhcCHHHHHHH
Confidence            3578999999999988754321  12356778889999999999999988764 34678899999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          231 FRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       231 f~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      |+.+.... ..+...|..+...|.+.|++++|.+.|+++...
T Consensus        92 ~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           92 YQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            99998753 336788999999999999999999999998764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.47  E-value=3e-06  Score=76.20  Aligned_cols=157  Identities=15%  Similarity=0.043  Sum_probs=120.7

Q ss_pred             CCCCCCCHHHHHHHHHHHHHC------CCCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHc------CC-CCCHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKET------GLIPN----AVAMLDGLCKDGLIQEAMKLFGLMREK------GT-IPEVVIYT  212 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~------gi~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~------g~-~pd~~tyn  212 (344)
                      .+...|++++|.++|++..+.      +-.|.    +..+...|...|++++|.++|+...+.      +- .....++.
T Consensus        78 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~  157 (311)
T 3nf1_A           78 VYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLN  157 (311)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHH
Confidence            344478999999999988764      22222    124778888999999999999988754      22 22456788


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC------CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-------------
Q 047934          213 AVVDGFCKAQKFDDAKRIFRKMQSN------GIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA-------------  272 (344)
Q Consensus       213 ~LI~ay~k~g~~e~A~~vf~~M~~~------gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~-------------  272 (344)
                      .+-..|...|++++|..+|+++.+.      +-.| ...+|..+..+|.+.|++++|.+.|+++.+.             
T Consensus       158 ~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  237 (311)
T 3nf1_A          158 NLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDEN  237 (311)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcch
Confidence            8999999999999999999998764      2122 3457889999999999999999999988752             


Q ss_pred             -----------------------------------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          273 -----------------------------------GHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       273 -----------------------------------gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                                                         .-..+..++..+...|.+.|++++|.++++...+
T Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          238 KPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                                               1122345677888899999999999999998764

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

Probab=98.46  E-value=9.1e-07  Score=85.64  Aligned_cols=171  Identities=14%  Similarity=-0.026  Sum_probs=133.3

Q ss_pred             CCCCHHHHHHHHHHHHH-----CCCCCC-----------HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKE-----TGLIPN-----------AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVD  216 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~-----~gi~p~-----------~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~  216 (344)
                      ..|++++|.++|+++.+     ....|+           +..+...+...|++++|..+|+.+.+..-  +..++..+..
T Consensus       201 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~--~~~~~~~l~~  278 (514)
T 2gw1_A          201 SPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFP--RVNSYIYMAL  278 (514)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCC--CHHHHHHHHH
T ss_pred             hhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCc--cHHHHHHHHH
Confidence            36889999999999887     311211           12467788899999999999999887653  3888999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          217 GFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEK  296 (344)
Q Consensus       217 ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~  296 (344)
                      +|...|++++|...|+.+.... ..+...|..+...|...|++++|...|++.....- .+..++..+...|...|++++
T Consensus       279 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~  356 (514)
T 2gw1_A          279 IMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDP-ENIFPYIQLACLAYRENKFDD  356 (514)
T ss_dssp             HHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCS-SCSHHHHHHHHHTTTTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCh-hhHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999988753 23677889999999999999999999999887532 256778888888999999999


Q ss_pred             HHHHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          297 AQSVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       297 a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      |.+++..+.+..- .+..++..+-..|...|.
T Consensus       357 A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~  387 (514)
T 2gw1_A          357 CETLFSEAKRKFP-EAPEVPNFFAEILTDKND  387 (514)
T ss_dssp             HHHHHHHHHHHST-TCSHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHcc-cCHHHHHHHHHHHHHCCC
Confidence            9999999876532 134455555555655554

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

Probab=98.46  E-value=3.3e-06  Score=73.88  Aligned_cols=148  Identities=13%  Similarity=0.039  Sum_probs=112.0

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHc-----------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLIPN----AVAMLDGLCKD-----------GLIQEAMKLFGLMREKGTIPEVVIYTAVVD  216 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~----~~tli~~~~k~-----------g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~  216 (344)
                      ...|++++|+..|++..+.+  |+    +..+-..|.+.           |++++|+..|+...+.. +-+..++..+-.
T Consensus        50 ~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~  126 (217)
T 2pl2_A           50 LKLGLVNPALENGKTLVART--PRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGL  126 (217)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            34788999999999988754  32    23466777788           99999999999988753 236788899999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          217 GFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEK  296 (344)
Q Consensus       217 ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~  296 (344)
                      +|...|++++|+..|++..+..  .+...|..+-.+|...|++++|...|++..+.. +-+...+..+...+...|+.++
T Consensus       127 ~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~  203 (217)
T 2pl2_A          127 VYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEE  203 (217)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC------
T ss_pred             HHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHH
Confidence            9999999999999999998877  688999999999999999999999999988753 2357788888899999999999


Q ss_pred             HHHHHHHHH
Q 047934          297 AQSVIATLK  305 (344)
Q Consensus       297 a~~l~~~M~  305 (344)
                      |.+.++...
T Consensus       204 A~~~~~~~~  212 (217)
T 2pl2_A          204 AARAAALEH  212 (217)
T ss_dssp             ---------
T ss_pred             HHHHHHHHh
Confidence            999888654

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

Probab=98.41  E-value=4e-05  Score=69.88  Aligned_cols=174  Identities=7%  Similarity=-0.009  Sum_probs=124.1

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCC-C-CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLI-P-NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~-p-~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      +...|++++|.++|+++.+..-. + .+..+...|...|++++|.+.|+...+.. +.+..++..+...|...|++++|.
T Consensus       130 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~  208 (359)
T 3ieg_A          130 AFDGADYTAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSL  208 (359)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            34477899999999998775322 1 12357788888999999999999888753 447788889999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHH------------HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHHcC
Q 047934          229 RIFRKMQSNGIAPNAFSYN------------LLIQGLYKCNKLEEAVEYCIEMLEAGHSPNV----TTFVGLVDGLCRER  292 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~tyn------------~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~----~ty~~lL~a~~~~G  292 (344)
                      ..|+...+..- .+...|.            .+...|.+.|++++|.+.+++.....-. +.    ..+..+...+...|
T Consensus       209 ~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~  286 (359)
T 3ieg_A          209 SEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDE  286 (359)
T ss_dssp             HHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhCc-cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHcc
Confidence            99988876521 2333333            2256688889999999999888775321 22    22445667788889


Q ss_pred             CHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          293 GVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       293 ~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      ++++|.++++...+.. ..+..++..+-..|...|.
T Consensus       287 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~  321 (359)
T 3ieg_A          287 KPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEM  321 (359)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCC
Confidence            9999999998887752 2245566666666666664

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.41  E-value=3.6e-06  Score=75.65  Aligned_cols=158  Identities=15%  Similarity=0.059  Sum_probs=122.3

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCC------CCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHc------C-CCCCHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETG------LIPN----AVAMLDGLCKDGLIQEAMKLFGLMREK------G-TIPEVVIYT  212 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~g------i~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~------g-~~pd~~tyn  212 (344)
                      .++..|++++|..+|+++.+.-      ..|.    +..+-..|...|++++|.++|+...+.      + ......++.
T Consensus        36 ~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  115 (311)
T 3nf1_A           36 QYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLN  115 (311)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHH
Confidence            3445788999999999888730      1121    224778888999999999999988754      2 223467889


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC------CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc------CCCC-CH
Q 047934          213 AVVDGFCKAQKFDDAKRIFRKMQSN------GIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA------GHSP-NV  278 (344)
Q Consensus       213 ~LI~ay~k~g~~e~A~~vf~~M~~~------gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~------gv~p-d~  278 (344)
                      .+...|...|++++|...|++..+.      +-.+ ....|..+...|...|++++|+++|++....      +-.| ..
T Consensus       116 ~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  195 (311)
T 3nf1_A          116 NLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVA  195 (311)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHH
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHH
Confidence            9999999999999999999988764      2222 3567888999999999999999999998764      2233 34


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          279 TTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       279 ~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      .++..+...|...|++++|.++++++.+.
T Consensus       196 ~~~~~la~~~~~~g~~~~A~~~~~~al~~  224 (311)
T 3nf1_A          196 KTKNNLASCYLKQGKFKQAETLYKEILTR  224 (311)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            56788889999999999999999998763

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.40  E-value=6.1e-07  Score=79.31  Aligned_cols=154  Identities=16%  Similarity=0.089  Sum_probs=115.3

Q ss_pred             CCCHHHHHHHHHHHHHC-----C-CCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHc------CC-CCCHHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKET-----G-LIPN----AVAMLDGLCKDGLIQEAMKLFGLMREK------GT-IPEVVIYTAVVD  216 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~-----g-i~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~------g~-~pd~~tyn~LI~  216 (344)
                      .|++++|+++|++..+.     + ..|.    +..+-..|...|++++|..+|+...+.      +- .....++..+-.
T Consensus        14 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~   93 (283)
T 3edt_B           14 LVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAV   93 (283)
T ss_dssp             CSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHH
Confidence            44555666666554441     1 1121    225788888999999999999988754      22 234678899999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHC------C-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc------CCCC-CHHHHH
Q 047934          217 GFCKAQKFDDAKRIFRKMQSN------G-IAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA------GHSP-NVTTFV  282 (344)
Q Consensus       217 ay~k~g~~e~A~~vf~~M~~~------g-i~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~------gv~p-d~~ty~  282 (344)
                      .|...|++++|...|++..+.      . ......+|..+-..|...|++++|.++|++....      +-.| ...++.
T Consensus        94 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  173 (283)
T 3edt_B           94 LYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKN  173 (283)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            999999999999999988654      1 1223667889999999999999999999998764      1123 356788


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          283 GLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       283 ~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      .+...|...|++++|.+++++..+.
T Consensus       174 ~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          174 NLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            8889999999999999999988753

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.39  E-value=5.4e-05  Score=66.73  Aligned_cols=157  Identities=11%  Similarity=-0.115  Sum_probs=117.5

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          149 RNEPISEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDD  226 (344)
Q Consensus       149 ~~~~~sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~  226 (344)
                      ..+...|++++|.+.|++..+.+-.  ..+..+...|...|++++|.+.|+...+.. +.+..++..+..+|.+.|++++
T Consensus        51 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~  129 (275)
T 1xnf_A           51 VLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKL  129 (275)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHH
Confidence            3445578999999999998875422  113357888999999999999999988763 2367899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-------------------------------C
Q 047934          227 AKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH-------------------------------S  275 (344)
Q Consensus       227 A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv-------------------------------~  275 (344)
                      |...|+++.+.  .|+...+..++..+...|++++|...+.+.....-                               .
T Consensus       130 A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  207 (275)
T 1xnf_A          130 AQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDN  207 (275)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSH
T ss_pred             HHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhcCHHHHHHHHHHHhccc
Confidence            99999999875  45555555555666777889999888866544210                               1


Q ss_pred             C-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          276 P-----NVTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       276 p-----d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      |     +..++..+...|...|+.++|.+.++...+..
T Consensus       208 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          208 TSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             ccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            1     13566677777778888888888888877653

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.37  E-value=2.1e-05  Score=72.39  Aligned_cols=167  Identities=13%  Similarity=0.099  Sum_probs=122.3

Q ss_pred             HHHHHHHHHHHHHCCCCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HH-HHHHHHHHHHHcCCHHHHHHH
Q 047934          157 PQEADEIFKKMKETGLIPN----AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPE-VV-IYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       157 ~~~A~~lf~~M~~~gi~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd-~~-tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      +++|..+|++..+. +.|+    |..+...+.+.|++++|.++|+...+.  .|+ .. +|..+...+.+.|++++|+.+
T Consensus        80 ~~~A~~~~~rAl~~-~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~  156 (308)
T 2ond_A           80 SDEAANIYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMI  156 (308)
T ss_dssp             HHHHHHHHHHHHTT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             hHHHHHHHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHH
Confidence            38999999988762 1232    446788888899999999999998874  343 33 889999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-
Q 047934          231 FRKMQSNGIAPNAFSYNLLIQGLY-KCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKG-  308 (344)
Q Consensus       231 f~~M~~~gi~pd~~tyn~LI~ay~-k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G-  308 (344)
                      |++..+..- .+...|........ ..|+.++|.++|++..+.. .-+...|..++..+.+.|+.++|..+|+...... 
T Consensus       157 ~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~  234 (308)
T 2ond_A          157 FKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccC
Confidence            999887532 23445544433322 2689999999999887642 2257778888888888999999999999998873 


Q ss_pred             Ccc--cHHHHHHHHhccCCCCh
Q 047934          309 FLV--NDKAVREFLDKKAPFSS  328 (344)
Q Consensus       309 i~p--~~~~~~~Ll~~yak~g~  328 (344)
                      +.|  ....|..++..+.+.|.
T Consensus       235 l~p~~~~~l~~~~~~~~~~~g~  256 (308)
T 2ond_A          235 LPPEKSGEIWARFLAFESNIGD  256 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSC
T ss_pred             CCHHHHHHHHHHHHHHHHHcCC
Confidence            555  35566666665555553

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.35  E-value=3.6e-05  Score=70.78  Aligned_cols=152  Identities=11%  Similarity=0.000  Sum_probs=121.3

Q ss_pred             CCCHHHHHHHHHHHHHCCC-CC--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HcCCHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGL-IP--NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFC-KAQKFDDAKR  229 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi-~p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~-k~g~~e~A~~  229 (344)
                      .|++++|.++|++..+..- .+  -|..+...+.+.|++++|..+|+...+.. +.+...|........ ..|+.++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            6789999999999987432 12  25567788888999999999999988754 234555554444433 3699999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG-HSP--NVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g-v~p--d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      +|+...+.. .-+...|..++..+.+.|+.++|..+|++..... +.|  ....|..++....+.|+.+.|..++..+.+
T Consensus       191 ~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~  269 (308)
T 2ond_A          191 IFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999987752 2368899999999999999999999999999873 455  467888889999999999999999999886


Q ss_pred             C
Q 047934          307 K  307 (344)
Q Consensus       307 ~  307 (344)
                      .
T Consensus       270 ~  270 (308)
T 2ond_A          270 A  270 (308)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=98.30  E-value=1.9e-05  Score=77.01  Aligned_cols=155  Identities=18%  Similarity=0.097  Sum_probs=128.1

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPN-AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~-~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      .+...|++++|.+.|++..+..-.+. +..+...|...|++++|.++|+...+.. +.+..+|..+...|...|++++|.
T Consensus       252 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  330 (537)
T 3fp2_A          252 FHFLKNNLLDAQVLLQESINLHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAK  330 (537)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHhcccHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHH
Confidence            33447889999999999987542211 2246677788999999999999988764 347889999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          229 RIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      ..|++..+.. .-+...|..+..+|.+.|++++|.++|+++.+.. .-+...+..+...|...|++++|.+.++.+.+.
T Consensus       331 ~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  407 (537)
T 3fp2_A          331 EDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRL  407 (537)
T ss_dssp             HHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            9999998753 2256789999999999999999999999998763 335678888999999999999999999998754

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.29  E-value=9.7e-06  Score=79.85  Aligned_cols=156  Identities=10%  Similarity=-0.009  Sum_probs=129.9

Q ss_pred             CCCCCCCCH-HHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc----
Q 047934          149 RNEPISEPP-QEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKA----  221 (344)
Q Consensus       149 ~~~~~sg~~-~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~----  221 (344)
                      ..+...|++ ++|++.|++..+.+-.  ..+..+-..|.+.|++++|.+.|+...+.  .|+..++..+-..|...    
T Consensus       110 ~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~~~~~~~~~~  187 (474)
T 4abn_A          110 KALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSMVLRQLQTDS  187 (474)
T ss_dssp             HHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHHHHTTCCCSC
T ss_pred             HHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHHHHHHhccCC
Confidence            344557889 9999999998875422  11345788899999999999999998875  47788999999999999    


Q ss_pred             -----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc--------CCHHHHHHHHHHHHHcCCC--CCHHHHHHHHH
Q 047934          222 -----QKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC--------NKLEEAVEYCIEMLEAGHS--PNVTTFVGLVD  286 (344)
Q Consensus       222 -----g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~--------g~~~~A~~lf~~M~~~gv~--pd~~ty~~lL~  286 (344)
                           |++++|...|++..+.. .-+...|..+-.+|...        |++++|++.|++..+..-.  -+...|..+-.
T Consensus       188 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~  266 (474)
T 4abn_A          188 GDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRAT  266 (474)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHH
T ss_pred             hhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHH
Confidence                 99999999999988753 22678899999999998        9999999999998875210  37888999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHC
Q 047934          287 GLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       287 a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +|...|++++|.+.++...+.
T Consensus       267 ~~~~~g~~~~A~~~~~~al~l  287 (474)
T 4abn_A          267 LHKYEESYGEALEGFSQAAAL  287 (474)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999998765

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=98.27  E-value=1.9e-05  Score=77.04  Aligned_cols=169  Identities=10%  Similarity=0.016  Sum_probs=134.0

Q ss_pred             CCHHHHHHHHHHHHHCCCCC-C--------HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          155 EPPQEADEIFKKMKETGLIP-N--------AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFD  225 (344)
Q Consensus       155 g~~~~A~~lf~~M~~~gi~p-~--------~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e  225 (344)
                      |++++|..+|+++.+..-.. +        +..+-..+...|++++|.+.|+...+.  .|+..+|..+-..|...|+++
T Consensus       216 ~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~  293 (537)
T 3fp2_A          216 DLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQ  293 (537)
T ss_dssp             HHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCH
T ss_pred             HHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHH
Confidence            46899999999988654221 1        113456777889999999999999876  356889999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          226 DAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       226 ~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      +|...|+.+.+.. .-+..+|..+...|...|++++|.+.|++..... .-+..++..+...|...|++++|.+++..+.
T Consensus       294 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  371 (537)
T 3fp2_A          294 EFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETK  371 (537)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999998753 2368899999999999999999999999998763 2246788889999999999999999999998


Q ss_pred             HCCCcccHHHHHHHHhccCCCCh
Q 047934          306 EKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       306 ~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      +.. ..+...+..+-..|...|.
T Consensus       372 ~~~-~~~~~~~~~l~~~~~~~g~  393 (537)
T 3fp2_A          372 LKF-PTLPEVPTFFAEILTDRGD  393 (537)
T ss_dssp             HHC-TTCTHHHHHHHHHHHHTTC
T ss_pred             HhC-CCChHHHHHHHHHHHHhCC
Confidence            763 2234566666666666664

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=98.27  E-value=3.4e-05  Score=80.40  Aligned_cols=150  Identities=15%  Similarity=0.092  Sum_probs=126.0

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIPN----AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDD  226 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~  226 (344)
                      +...|++++|++.|++..+..  |+    +..+-.+|.+.|++++|++.|++..+.. +-+..+|..|-.+|.+.|++++
T Consensus        19 ~~~~G~~~eAi~~~~kAl~l~--P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~l~~~g~~~~   95 (723)
T 4gyw_A           19 KREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTLKEMQDVQG   95 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            445789999999999988753  33    2357788899999999999999988753 2368899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          227 AKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       227 A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      |++.|++..+.. .-+...|+.+-.+|.+.|++++|++.|++..+.  .| +...|..+...|...|++++|.+.++.+.
T Consensus        96 A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~~A~~~~~kal  172 (723)
T 4gyw_A           96 ALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWTDYDERMKKLV  172 (723)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHHHHHHHHHHHH
Confidence            999999988753 225789999999999999999999999998875  34 57888999999999999999988888765


Q ss_pred             H
Q 047934          306 E  306 (344)
Q Consensus       306 ~  306 (344)
                      +
T Consensus       173 ~  173 (723)
T 4gyw_A          173 S  173 (723)
T ss_dssp             H
T ss_pred             H
Confidence            4

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=98.18  E-value=0.00016  Score=62.62  Aligned_cols=141  Identities=11%  Similarity=-0.016  Sum_probs=108.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCHH---HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDD  226 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~~~---tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~  226 (344)
                      .++..|++++|++.|++..+..-.++..   .+-..|...|++++|++.|+...+..- -+..+|..+-..|...|++++
T Consensus        16 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~   94 (228)
T 4i17_A           16 DALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY-NLANAYIGKSAAYRDMKNNQE   94 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-SHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc-chHHHHHHHHHHHHHcccHHH
Confidence            3445788999999999988765323333   366778889999999999999887532 266788999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCH-------HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHHcCCH
Q 047934          227 AKRIFRKMQSNGIAPNA-------FSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN---VTTFVGLVDGLCRERGV  294 (344)
Q Consensus       227 A~~vf~~M~~~gi~pd~-------~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd---~~ty~~lL~a~~~~G~~  294 (344)
                      |...|++..+..- -+.       ..|..+-..+.+.|++++|++.|++..+.  .|+   ...|..+-..|...|..
T Consensus        95 A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~~~~~~~  169 (228)
T 4i17_A           95 YIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLFYNNGAD  169 (228)
T ss_dssp             HHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHHHHHHHH
Confidence            9999999887521 134       45777778888999999999999998765  455   45666777777777766

>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=98.17  E-value=7e-05  Score=74.86  Aligned_cols=152  Identities=8%  Similarity=-0.083  Sum_probs=111.0

Q ss_pred             CCCHHHHHHHHHHHHHCCCC-C-CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLI-P-NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~-p-~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      +|++++|++.|++..+..-. + .+..+-..|.+.|++++|.+.|++..+.. +-+..++..+-.+|...|++++|.+.|
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            46788999999987754321 0 12346778889999999999999988753 336889999999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc---CCHHHHHHHHHHHHHCC
Q 047934          232 RKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRE---RGVEKAQSVIATLKEKG  308 (344)
Q Consensus       232 ~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~---G~~e~a~~l~~~M~~~G  308 (344)
                      ++..+.. .-+...|..+-.+|.+.|++++|.+.|++..+.. .-+...+..+...+...   |+.++|.+.+++..+.+
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            9988753 2357899999999999999999999999988763 23577888899999999   99999999999988764

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.16  E-value=0.00027  Score=58.95  Aligned_cols=147  Identities=10%  Similarity=-0.020  Sum_probs=119.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      .+=..|.+.|++++|++.|+...+.. +-+..++..+-.+|.+.|++++|...+........ -+...+..+-..+...+
T Consensus        10 ~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   87 (184)
T 3vtx_A           10 DIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILGSANFMID   87 (184)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHHHHHHHcC
Confidence            45677889999999999999988763 33788999999999999999999999999877532 36778888888999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      +++.|.+.+.+..... .-+...+..+-..|.+.|++++|.+.++...+.. .-+..++..+-..|.+.|.
T Consensus        88 ~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~  156 (184)
T 3vtx_A           88 EKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGL  156 (184)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCC
Confidence            9999999999987653 3367788889999999999999999999988753 2245566666666666665

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

Probab=98.14  E-value=0.00021  Score=54.46  Aligned_cols=93  Identities=22%  Similarity=0.289  Sum_probs=57.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      .+...+...|++++|.++|+.+.+.. +.+..++..+...|.+.|++++|..+|+.+.+.. ..+..+|..+...|.+.|
T Consensus        14 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~   91 (125)
T 1na0_A           14 NLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQG   91 (125)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhc
Confidence            34555666667777777666665542 2345666666666666666666666666665542 224556666666666666


Q ss_pred             CHHHHHHHHHHHHHc
Q 047934          258 KLEEAVEYCIEMLEA  272 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~  272 (344)
                      ++++|.+.|+++...
T Consensus        92 ~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           92 DYDEAIEYYQKALEL  106 (125)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            666666666666554

>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=98.14  E-value=0.00023  Score=60.59  Aligned_cols=125  Identities=13%  Similarity=0.042  Sum_probs=90.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~  258 (344)
                      +-..+...|++++|.+.|+..    +.++..+|..+-..|...|++++|...|+...+.. ..+...|..+-.+|.+.|+
T Consensus        12 ~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~   86 (213)
T 1hh8_A           12 EGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEK   86 (213)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHccc
Confidence            344566778888888887765    35677788888888888888888888888776643 2356777788888888888


Q ss_pred             HHHHHHHHHHHHHcCC--------------CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          259 LEEAVEYCIEMLEAGH--------------SP-NVTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       259 ~~~A~~lf~~M~~~gv--------------~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      +++|.+.|++..+..-              .| ....+..+-.+|...|++++|.+.++...+..
T Consensus        87 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           87 YDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            8888888888776421              11 12566677777788888888888888877654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.10  E-value=0.00011  Score=64.90  Aligned_cols=176  Identities=11%  Similarity=-0.054  Sum_probs=129.9

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPN-----AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKF  224 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~-----~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~  224 (344)
                      .++..|++++|++.|++..+..-.+.     +..+-..|...|++++|++.|+...+.. +-+..+|..+-..|...|++
T Consensus        46 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~  124 (272)
T 3u4t_A           46 CYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNF  124 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCH
Confidence            34457889999999999988443333     2457888999999999999999988763 23668999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC---HHHHHHHH
Q 047934          225 DDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERG---VEKAQSVI  301 (344)
Q Consensus       225 e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~---~e~a~~l~  301 (344)
                      ++|...|++..+. ..-+...|..+-..+...+++++|.+.|++..+.. ..+...+..+...+...|+   .++|...+
T Consensus       125 ~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  202 (272)
T 3u4t_A          125 PLAIQYMEKQIRP-TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYY  202 (272)
T ss_dssp             HHHHHHHGGGCCS-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHH
T ss_pred             HHHHHHHHHHhhc-CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHH
Confidence            9999999988765 23356677777634555669999999999998753 2246777778888888887   77788888


Q ss_pred             HHHHHCC-Cccc------HHHHHHHHhccCCCCh
Q 047934          302 ATLKEKG-FLVN------DKAVREFLDKKAPFSS  328 (344)
Q Consensus       302 ~~M~~~G-i~p~------~~~~~~Ll~~yak~g~  328 (344)
                      +...+.. -.|+      ..++..+-..|...|.
T Consensus       203 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  236 (272)
T 3u4t_A          203 EKLIEVCAPGGAKYKDELIEANEYIAYYYTINRD  236 (272)
T ss_dssp             HHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhcccccchHHHHHHHHHHHHHHHHcCC
Confidence            8776542 1222      2445555555555554

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.06  E-value=0.00015  Score=64.39  Aligned_cols=157  Identities=11%  Similarity=-0.039  Sum_probs=117.0

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCC-C-H---HHHHHHHHHcCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHH--
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIP-N-A---VAMLDGLCKDGLIQEAMKLFGLMREKGT--IPEVVIYTAVVDGFCK--  220 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p-~-~---~tli~~~~k~g~~~~A~~lf~~M~~~g~--~pd~~tyn~LI~ay~k--  220 (344)
                      .++..|++++|+..|+++.+..-.. . .   ..+-..|.+.|++++|...|+...+..-  .....++..+-.+|..  
T Consensus        24 ~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~  103 (261)
T 3qky_A           24 EFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLS  103 (261)
T ss_dssp             HHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhc
Confidence            3445789999999999998754221 1 1   2466778899999999999999987631  1234567777778888  


Q ss_pred             ------cCCHHHHHHHHHHHHHCCCCCCHHHH-----------------HHHHHHHHHcCCHHHHHHHHHHHHHcCCC-C
Q 047934          221 ------AQKFDDAKRIFRKMQSNGIAPNAFSY-----------------NLLIQGLYKCNKLEEAVEYCIEMLEAGHS-P  276 (344)
Q Consensus       221 ------~g~~e~A~~vf~~M~~~gi~pd~~ty-----------------n~LI~ay~k~g~~~~A~~lf~~M~~~gv~-p  276 (344)
                            .|++++|...|+++.+..-. +...+                 -.+-..|.+.|++++|+..|++..+..-. +
T Consensus       104 ~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~  182 (261)
T 3qky_A          104 PPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTP  182 (261)
T ss_dssp             CCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTST
T ss_pred             ccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCc
Confidence                  99999999999999875211 22223                 45577888999999999999999875311 1


Q ss_pred             -CHHHHHHHHHHHHHc----------CCHHHHHHHHHHHHHC
Q 047934          277 -NVTTFVGLVDGLCRE----------RGVEKAQSVIATLKEK  307 (344)
Q Consensus       277 -d~~ty~~lL~a~~~~----------G~~e~a~~l~~~M~~~  307 (344)
                       ....+..+..+|...          |++++|...++.+.+.
T Consensus       183 ~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          183 WADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             THHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence             345677777777766          8999999999998875

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.05  E-value=0.00014  Score=71.94  Aligned_cols=170  Identities=12%  Similarity=0.108  Sum_probs=125.3

Q ss_pred             CCCHH-------HHHHHHHHHHHCCCCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHH
Q 047934          154 SEPPQ-------EADEIFKKMKETGLIPN----AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPE--VVIYTAVVDGFCK  220 (344)
Q Consensus       154 sg~~~-------~A~~lf~~M~~~gi~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd--~~tyn~LI~ay~k  220 (344)
                      .|+++       +|+.+|++..+. +.|+    |..+...+.+.|++++|.++|+...+.  .|+  ..+|..++..+.+
T Consensus       292 ~g~~~~a~~~~~~A~~~~~~Al~~-~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~  368 (530)
T 2ooe_A          292 KGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARR  368 (530)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTT-TCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHH
Confidence            46766       899999987752 2343    346788888999999999999999874  443  3589999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          221 AQKFDDAKRIFRKMQSNGIAPNAFSYNLLI-QGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQS  299 (344)
Q Consensus       221 ~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI-~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~  299 (344)
                      .|++++|+.+|++..+..- .+...|-... -.+...|+.++|.++|++..+.. .-+...|..++..+.+.|+.++|+.
T Consensus       369 ~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~  446 (530)
T 2ooe_A          369 AEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRV  446 (530)
T ss_dssp             HHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhccC-CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHH
Confidence            9999999999999887521 1222222221 12346899999999999887652 2257888889999999999999999


Q ss_pred             HHHHHHHCC-Cccc--HHHHHHHHhccCCCCh
Q 047934          300 VIATLKEKG-FLVN--DKAVREFLDKKAPFSS  328 (344)
Q Consensus       300 l~~~M~~~G-i~p~--~~~~~~Ll~~yak~g~  328 (344)
                      +|+.....+ ..|+  ...|..+++.....|.
T Consensus       447 ~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~  478 (530)
T 2ooe_A          447 LFERVLTSGSLPPEKSGEIWARFLAFESNIGD  478 (530)
T ss_dssp             HHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHhccCCCHHHHHHHHHHHHHHHHHcCC
Confidence            999998864 3443  4466666665555554

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=98.05  E-value=0.00031  Score=60.77  Aligned_cols=146  Identities=10%  Similarity=-0.046  Sum_probs=114.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      ..-..+...|++++|.+.|+...+..-.++..++..+-.+|...|++++|...|++..+..-. +...|..+-.+|...|
T Consensus        12 ~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~   90 (228)
T 4i17_A           12 NEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKSAAYRDMK   90 (228)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHcc
Confidence            355677889999999999999988754467788888999999999999999999999876322 5678899999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCccc---HHHHHHHHhccCCCC
Q 047934          258 KLEEAVEYCIEMLEAGHSPNV-------TTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVN---DKAVREFLDKKAPFS  327 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~-------~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~---~~~~~~Ll~~yak~g  327 (344)
                      ++++|++.|++..+..- -+.       ..|..+-..+...|++++|.+.+....+.  .|+   ...+..+-..|...|
T Consensus        91 ~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~~~~~  167 (228)
T 4i17_A           91 NNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLFYNNG  167 (228)
T ss_dssp             CHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHHHHHH
Confidence            99999999999887531 234       45677777788899999999999998875  454   334444444443333

>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=98.02  E-value=0.00049  Score=55.63  Aligned_cols=125  Identities=9%  Similarity=0.039  Sum_probs=100.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      .+-..+...|++++|...|+...+.. +.+..++..+-.+|...|++++|...|++..+.. ..+...|..+-.+|.+.|
T Consensus        18 ~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~   95 (166)
T 1a17_A           18 TQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALG   95 (166)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhc
Confidence            46677888999999999999887753 3368889999999999999999999999988753 336788999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHH--HHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTF--VGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty--~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      ++++|.+.|++.....- -+...+  ..+...+...|++++|.+.+....
T Consensus        96 ~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           96 KFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             CHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            99999999999887532 244444  334444777899999999988754

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.02  E-value=0.00011  Score=68.84  Aligned_cols=142  Identities=13%  Similarity=0.107  Sum_probs=109.0

Q ss_pred             HHHHHHHHHHCCCCCCHH---HHHHHHHHcCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          160 ADEIFKKMKETGLIPNAV---AMLDGLCKDGLIQEAMKLFGLMREKGT-IPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQ  235 (344)
Q Consensus       160 A~~lf~~M~~~gi~p~~~---tli~~~~k~g~~~~A~~lf~~M~~~g~-~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~  235 (344)
                      |+..|++..+.+ .++..   .+-.++...|+.++|++++..-...+- .-+...+-.++..|.+.|+.+.|.++++.|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            567777766654 22332   467778889999999999998766543 2377888999999999999999999999998


Q ss_pred             HCCCCC-----CHHHHHHHHHHHHH--cC--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          236 SNGIAP-----NAFSYNLLIQGLYK--CN--KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       236 ~~gi~p-----d~~tyn~LI~ay~k--~g--~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      +.  .|     +..+...|..+++.  .|  ..++|..+|+++.+.  .|+..+-..++.++.+.|++++|+++++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            75  45     35666677767433  34  899999999998765  46645555666688899999999999997665

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

Probab=97.99  E-value=0.00028  Score=53.71  Aligned_cols=99  Identities=19%  Similarity=0.266  Sum_probs=86.3

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 047934          208 VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDG  287 (344)
Q Consensus       208 ~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a  287 (344)
                      ..+|..+...|...|++++|..+|+++.+.. ..+..+|..+...|.+.|++++|..+|+++.... ..+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            5778888999999999999999999998753 3367889999999999999999999999998753 3367888899999


Q ss_pred             HHHcCCHHHHHHHHHHHHHCC
Q 047934          288 LCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       288 ~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      |...|++++|.++++.+.+..
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhC
Confidence            999999999999999988753

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.96  E-value=0.00038  Score=65.03  Aligned_cols=149  Identities=9%  Similarity=0.026  Sum_probs=110.6

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-----CHHHHHHHHHHHHH--c
Q 047934          153 ISEPPQEADEIFKKMKETGLIPNA----VAMLDGLCKDGLIQEAMKLFGLMREKGTIP-----EVVIYTAVVDGFCK--A  221 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~p~~----~tli~~~~k~g~~~~A~~lf~~M~~~g~~p-----d~~tyn~LI~ay~k--~  221 (344)
                      ..|++++|++++.+....+-.+..    ..++..|.+.|+.+.|.+.++.|.+.  .|     +..+..-|..++..  .
T Consensus       112 ~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~  189 (310)
T 3mv2_B          112 ILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAESYIKFAT  189 (310)
T ss_dssp             HHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHHHHHHHHh
Confidence            368999999999987665421111    25789999999999999999999875  45     35666666666333  3


Q ss_pred             C--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-----CC----CCCHHHHHHHHHHHHH
Q 047934          222 Q--KFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA-----GH----SPNVTTFVGLVDGLCR  290 (344)
Q Consensus       222 g--~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~-----gv----~pd~~ty~~lL~a~~~  290 (344)
                      |  +..+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+.     ..    .-|..+...+|..+..
T Consensus       190 g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~  267 (310)
T 3mv2_B          190 NKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALM  267 (310)
T ss_dssp             TCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHH
Confidence            4  899999999999775  355444455555899999999999999976653     11    2356677567666677


Q ss_pred             cCCHHHHHHHHHHHHHC
Q 047934          291 ERGVEKAQSVIATLKEK  307 (344)
Q Consensus       291 ~G~~e~a~~l~~~M~~~  307 (344)
                      .|+  +|.+++.++.+.
T Consensus       268 lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          268 QGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             TTC--TTHHHHHHHHHT
T ss_pred             hCh--HHHHHHHHHHHh
Confidence            787  889999999876

>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=97.96  E-value=0.00023  Score=64.62  Aligned_cols=157  Identities=8%  Similarity=-0.051  Sum_probs=116.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCC-CCCHH-------HHHHHHHHcCCHHHHHHHHHHHHHcCCC-CC----HHHHHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGL-IPNAV-------AMLDGLCKDGLIQEAMKLFGLMREKGTI-PE----VVIYTAVVD  216 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi-~p~~~-------tli~~~~k~g~~~~A~~lf~~M~~~g~~-pd----~~tyn~LI~  216 (344)
                      .+...|++++|.+++++..+... .|+..       .+...+...+++++|+..|+...+.... .+    ..+|+.+-.
T Consensus        84 ~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~  163 (293)
T 3u3w_A           84 MLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIAN  163 (293)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHH
Confidence            44557899999999999887432 22211       2444555667999999999998874322 23    347899999


Q ss_pred             HHHHcCCHHHHHHHHHHHHH----C-CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCCC-HHHHHHHH
Q 047934          217 GFCKAQKFDDAKRIFRKMQS----N-GIAPN-AFSYNLLIQGLYKCNKLEEAVEYCIEMLEA----GHSPN-VTTFVGLV  285 (344)
Q Consensus       217 ay~k~g~~e~A~~vf~~M~~----~-gi~pd-~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~----gv~pd-~~ty~~lL  285 (344)
                      .|...|++++|...|++..+    . +..+. ..+|..+-..|.+.|++++|.+.+++..+.    +..+. ..+|..+-
T Consensus       164 ~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg  243 (293)
T 3u3w_A          164 IYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRG  243 (293)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHH
Confidence            99999999999999999874    1 21222 347889999999999999999999987642    32333 67788888


Q ss_pred             HHHHHcC-CHHHHHHHHHHHHH
Q 047934          286 DGLCRER-GVEKAQSVIATLKE  306 (344)
Q Consensus       286 ~a~~~~G-~~e~a~~l~~~M~~  306 (344)
                      .+|.+.| ..++|.+.++....
T Consensus       244 ~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          244 ECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCcHHHHHHHHHHHHH
Confidence            8899999 57999998887654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=97.96  E-value=0.00072  Score=58.91  Aligned_cols=154  Identities=11%  Similarity=0.048  Sum_probs=110.8

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CCH-HHHHHHHHHHHH---
Q 047934          151 EPISEPPQEADEIFKKMKETGLI-PN----AVAMLDGLCKDGLIQEAMKLFGLMREKGTI-PEV-VIYTAVVDGFCK---  220 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~-p~----~~tli~~~~k~g~~~~A~~lf~~M~~~g~~-pd~-~tyn~LI~ay~k---  220 (344)
                      ++..|++++|+..|+++.+..-. |.    +.-+..+|.+.|++++|...|+.+.+..-. +.. ..+-.+-.++..   
T Consensus        14 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~   93 (225)
T 2yhc_A           14 KLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDD   93 (225)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhh
Confidence            34468899999999999875322 21    224677889999999999999998875322 221 123223333332   


Q ss_pred             ---------------cCCHHHHHHHHHHHHHCCCCCC-HHHH-----------------HHHHHHHHHcCCHHHHHHHHH
Q 047934          221 ---------------AQKFDDAKRIFRKMQSNGIAPN-AFSY-----------------NLLIQGLYKCNKLEEAVEYCI  267 (344)
Q Consensus       221 ---------------~g~~e~A~~vf~~M~~~gi~pd-~~ty-----------------n~LI~ay~k~g~~~~A~~lf~  267 (344)
                                     .|+.++|...|+++.+.-  |+ ...+                 -.+-..|.+.|++++|...|+
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~  171 (225)
T 2yhc_A           94 SALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVE  171 (225)
T ss_dssp             --------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             hhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence                           578999999999998752  33 2222                 234556889999999999999


Q ss_pred             HHHHcCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          268 EMLEAGHSPN----VTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       268 ~M~~~gv~pd----~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      ++.+.-  |+    ...+..+..+|.+.|+.++|.+.++.+...+
T Consensus       172 ~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          172 GMLRDY--PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHS--TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHC--cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            998752  33    2567888999999999999999999888764

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=97.94  E-value=0.00043  Score=72.02  Aligned_cols=145  Identities=11%  Similarity=0.025  Sum_probs=118.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      .|=..|.+.|++++|++.|++..+.. +-+..+|+.|-.+|.+.|++++|+..|++..+.. .-+...|..+-.+|.+.|
T Consensus        14 nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~l~~~g   91 (723)
T 4gyw_A           14 NLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTLKEMQ   91 (723)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            46677889999999999999988753 2368899999999999999999999999988753 125789999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcc-cHHHHHHHHhccCCCC
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLV-NDKAVREFLDKKAPFS  327 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p-~~~~~~~Ll~~yak~g  327 (344)
                      ++++|++.|++..+.. .-+...|..+-..|...|++++|.+.++...+.  .| +...+..|...|...|
T Consensus        92 ~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g  159 (723)
T 4gyw_A           92 DVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVC  159 (723)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcc
Confidence            9999999999988752 225788999999999999999999999998875  33 3455555555554444

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.92  E-value=0.002  Score=62.82  Aligned_cols=146  Identities=15%  Similarity=0.107  Sum_probs=101.4

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAVAMLDGLCK----DGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCK----AQKFD  225 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k----~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k----~g~~e  225 (344)
                      .+++++|.+.|....+.|.......|-..|..    .++.++|.+.|+...+.|   +...+..|=.+|..    .++++
T Consensus        56 ~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~  132 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKA  132 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             CcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHH
Confidence            46788888888887776644323344555555    678888888888777664   55666667777776    67788


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHH
Q 047934          226 DAKRIFRKMQSNGIAPNAFSYNLLIQGLYK----CNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCR----ERGVEKA  297 (344)
Q Consensus       226 ~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k----~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~----~G~~e~a  297 (344)
                      +|...|++..+.|   +...+..|-..|..    .++.++|++.|++..+.|   +...+..+-..|..    .++.++|
T Consensus       133 ~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A  206 (490)
T 2xm6_A          133 ESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAIS  206 (490)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHH
Confidence            8888888777765   56666666666766    667777877777777664   56666666666666    6777777


Q ss_pred             HHHHHHHHHCC
Q 047934          298 QSVIATLKEKG  308 (344)
Q Consensus       298 ~~l~~~M~~~G  308 (344)
                      .+++....+.|
T Consensus       207 ~~~~~~a~~~~  217 (490)
T 2xm6_A          207 AQWYRKSATSG  217 (490)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHCC
Confidence            77777766654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=97.90  E-value=0.0002  Score=70.35  Aligned_cols=167  Identities=12%  Similarity=-0.001  Sum_probs=132.1

Q ss_pred             HHHHHHHHHHHHHCCCCCCH---HHHHHHHHHcCCH-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047934          157 PQEADEIFKKMKETGLIPNA---VAMLDGLCKDGLI-QEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFR  232 (344)
Q Consensus       157 ~~~A~~lf~~M~~~gi~p~~---~tli~~~~k~g~~-~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~  232 (344)
                      +++|++.+++.....-. +.   ..+-..|...|++ ++|++.|+...+.. +-+..+|..+-.+|.+.|++++|...|+
T Consensus        84 ~~~al~~l~~~~~~~~~-~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQV-EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCch-hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            66777777765543321 22   2355667788999 99999999988763 2368899999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHc---------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc--------CCHH
Q 047934          233 KMQSNGIAPNAFSYNLLIQGLYKC---------NKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRE--------RGVE  295 (344)
Q Consensus       233 ~M~~~gi~pd~~tyn~LI~ay~k~---------g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~--------G~~e  295 (344)
                      +..+.  .|+...|..+-..|...         |++++|++.|++..+.. .-+...|..+-.+|...        |+++
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            99876  57788999999999999         99999999999988763 23578888899999988        9999


Q ss_pred             HHHHHHHHHHHCCCc--ccHHHHHHHHhccCCCCh
Q 047934          296 KAQSVIATLKEKGFL--VNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       296 ~a~~l~~~M~~~Gi~--p~~~~~~~Ll~~yak~g~  328 (344)
                      +|.+.++...+..-.  -+...+..+-..|...|.
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~  273 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEES  273 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCC
Confidence            999999999875310  256667666666666664

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=97.90  E-value=0.00043  Score=68.35  Aligned_cols=152  Identities=12%  Similarity=0.042  Sum_probs=115.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCC-C--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHHcCCHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLI-P--NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDG-FCKAQKFDDAKR  229 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~-p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~a-y~k~g~~e~A~~  229 (344)
                      .|++++|..+|++..+..-. +  -|..+...+.+.|+.++|.++|+...+..- .+...|-..... +...|+.++|..
T Consensus       334 ~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~  412 (530)
T 2ooe_A          334 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFK  412 (530)
T ss_dssp             TTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHHHHHTCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHHHHHHHcCChhHHHH
Confidence            68999999999999885321 1  133566667788999999999999887521 223333222222 346899999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG-HSPN--VTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g-v~pd--~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      +|+...+.. .-+...|..++..+.+.|+.++|..+|++..... ..|+  ...|...+......|+.+.+..+...+.+
T Consensus       413 ~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          413 IFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999887652 2368899999999999999999999999998863 2332  55788888888889999999999998876


Q ss_pred             C
Q 047934          307 K  307 (344)
Q Consensus       307 ~  307 (344)
                      .
T Consensus       492 ~  492 (530)
T 2ooe_A          492 A  492 (530)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=97.90  E-value=0.00054  Score=65.75  Aligned_cols=172  Identities=8%  Similarity=-0.056  Sum_probs=133.1

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCC-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGL-IQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~-~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      ...|++++|++.|++..+.+=.  .-|..+-..|...|+ +++|+..|+...+..- -+..+|+.+-.+|...|++++|+
T Consensus       108 ~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P-~~~~a~~~~g~~~~~~g~~~eAl  186 (382)
T 2h6f_A          108 QRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVLVEWLRDPSQEL  186 (382)
T ss_dssp             HHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHH
T ss_pred             HHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHccCHHHHH
Confidence            3467899999999998875421  013346677888997 9999999999988643 37889999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-cCCHHHH-----HHHHH
Q 047934          229 RIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCR-ERGVEKA-----QSVIA  302 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~-~G~~e~a-----~~l~~  302 (344)
                      ..|+++.+..- -+...|..+-.+|.+.|++++|+..|+++.+..- -+...|+.+-.++.. .|..++|     .+.+.
T Consensus       187 ~~~~kal~ldP-~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~  264 (382)
T 2h6f_A          187 EFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDRAVLEREVQYTL  264 (382)
T ss_dssp             HHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHH
Confidence            99999988632 2788999999999999999999999999998642 267888888888888 6665666     47777


Q ss_pred             HHHHCCCcccHHHHHHHHhccCCCC
Q 047934          303 TLKEKGFLVNDKAVREFLDKKAPFS  327 (344)
Q Consensus       303 ~M~~~Gi~p~~~~~~~Ll~~yak~g  327 (344)
                      ...+..= -+...|..+-..+.+.|
T Consensus       265 ~Al~l~P-~~~~a~~~l~~ll~~~g  288 (382)
T 2h6f_A          265 EMIKLVP-HNESAWNYLKGILQDRG  288 (382)
T ss_dssp             HHHHHST-TCHHHHHHHHHHHTTTC
T ss_pred             HHHHHCC-CCHHHHHHHHHHHHccC
Confidence            7665421 13456666666666665

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.89  E-value=8.3e-05  Score=62.60  Aligned_cols=152  Identities=16%  Similarity=0.056  Sum_probs=108.2

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHcCCHHHHHHHHHHHHHc----CCC-CCHHHHHHHHHHHHHcCC
Q 047934          153 ISEPPQEADEIFKKMKETGLIPNA----VAMLDGLCKDGLIQEAMKLFGLMREK----GTI-PEVVIYTAVVDGFCKAQK  223 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~p~~----~tli~~~~k~g~~~~A~~lf~~M~~~----g~~-pd~~tyn~LI~ay~k~g~  223 (344)
                      ..|++++|.++++.+...  .+..    ..+-..|...|++++|...|++..+.    +.. ....++..+-..|...|+
T Consensus         4 ~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH--PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS--TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             ccccHHHHHHHHHHhcCC--hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            468899999966555432  1122    24677788899999999999987652    221 235678888889999999


Q ss_pred             HHHHHHHHHHHHHC----CCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCC----HHHHHHHHHHHHHcC
Q 047934          224 FDDAKRIFRKMQSN----GIAP--NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG-HSPN----VTTFVGLVDGLCRER  292 (344)
Q Consensus       224 ~e~A~~vf~~M~~~----gi~p--d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g-v~pd----~~ty~~lL~a~~~~G  292 (344)
                      +++|...|++..+.    +-.+  ....+..+-..|...|++++|.+.+++..... -..+    ..++..+-..+...|
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            99999999887553    2111  24567888889999999999999999876421 0112    233567777888999


Q ss_pred             CHHHHHHHHHHHHH
Q 047934          293 GVEKAQSVIATLKE  306 (344)
Q Consensus       293 ~~e~a~~l~~~M~~  306 (344)
                      ++++|.+.+.+..+
T Consensus       162 ~~~~A~~~~~~al~  175 (203)
T 3gw4_A          162 NLLEAQQHWLRARD  175 (203)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999887664

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=97.88  E-value=0.00083  Score=58.25  Aligned_cols=155  Identities=13%  Similarity=-0.057  Sum_probs=106.0

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcC----CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDG----LIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCK----AQKFD  225 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g----~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k----~g~~e  225 (344)
                      .+++++|++.|++..+.|....+..|=..|.. +    +.++|+++|+...+.|   +...+..|=.+|..    .++++
T Consensus        31 ~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~  106 (212)
T 3rjv_A           31 SGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLARVLVNRQAGATDVA  106 (212)
T ss_dssp             HTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHH
Confidence            46788888888888877744222233333444 5    7888888888887765   56677777777766    77888


Q ss_pred             HHHHHHHHHHHCCCC-CCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc-C-----CH
Q 047934          226 DAKRIFRKMQSNGIA-PNAFSYNLLIQGLYK----CNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRE-R-----GV  294 (344)
Q Consensus       226 ~A~~vf~~M~~~gi~-pd~~tyn~LI~ay~k----~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~-G-----~~  294 (344)
                      +|...|++..+.|.. -+...+..|-..|..    .++.++|++.|++..+.+  .+...+..|-..|... |     +.
T Consensus       107 ~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~  184 (212)
T 3rjv_A          107 HAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNK  184 (212)
T ss_dssp             HHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCH
T ss_pred             HHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCH
Confidence            888888887766421 016677777777777    778888888888887762  2344555555555543 3     78


Q ss_pred             HHHHHHHHHHHHCCCcccHH
Q 047934          295 EKAQSVIATLKEKGFLVNDK  314 (344)
Q Consensus       295 e~a~~l~~~M~~~Gi~p~~~  314 (344)
                      ++|.+.++...+.|...-..
T Consensus       185 ~~A~~~~~~A~~~g~~~A~~  204 (212)
T 3rjv_A          185 QKALHWLNVSCLEGFDTGCE  204 (212)
T ss_dssp             HHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHH
Confidence            88888888888777654433

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.87  E-value=0.00083  Score=51.45  Aligned_cols=113  Identities=19%  Similarity=0.127  Sum_probs=79.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      .+...+...|++++|.+.|+...+.. +.+..++..+...|...|++++|...++...+.. ..+...|..+...|.+.|
T Consensus        17 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   94 (131)
T 2vyi_A           17 TEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSSLN   94 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHHhC
Confidence            45666777888888888888776652 2367777778888888888888888888877642 224667777778888888


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERG  293 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~  293 (344)
                      ++++|.+.|++..... .-+...+..+...+...|+
T Consensus        95 ~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           95 KHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            8888888888776652 1245566666666665554

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.87  E-value=0.00015  Score=66.19  Aligned_cols=156  Identities=8%  Similarity=-0.027  Sum_probs=114.9

Q ss_pred             CCCCCCHHHHHHHHHHHHHC----CCCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKET----GLIPN----AVAMLDGLCKDGLIQEAMKLFGLMREK----GTIP-EVVIYTAVVDG  217 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~----gi~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~----g~~p-d~~tyn~LI~a  217 (344)
                      +...|++++|.+.|.+..+.    |-.+.    +..+-..|.+.|++++|+..|+...+.    |-.. -..+++.+-.+
T Consensus        47 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~  126 (292)
T 1qqe_A           47 YRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEI  126 (292)
T ss_dssp             HHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34478899999999876543    22111    224677888999999999999876543    2111 14578889999


Q ss_pred             HHHc-CCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH------HHHHHHH
Q 047934          218 FCKA-QKFDDAKRIFRKMQSNGIA-PN----AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNV------TTFVGLV  285 (344)
Q Consensus       218 y~k~-g~~e~A~~vf~~M~~~gi~-pd----~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~------~ty~~lL  285 (344)
                      |... |++++|...|++..+..-. .+    ..+|..+-..|.+.|++++|+..|++..+.......      .+|..+.
T Consensus       127 ~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  206 (292)
T 1qqe_A          127 LENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKG  206 (292)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHH
T ss_pred             HHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHH
Confidence            9996 9999999999987653100 01    357888999999999999999999999876433221      2567777


Q ss_pred             HHHHHcCCHHHHHHHHHHHHH
Q 047934          286 DGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       286 ~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      .++...|+.++|...++...+
T Consensus       207 ~~~~~~g~~~~A~~~~~~al~  227 (292)
T 1qqe_A          207 LCQLAATDAVAAARTLQEGQS  227 (292)
T ss_dssp             HHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHcCCHHHHHHHHHHHHh
Confidence            788899999999999998765

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=97.86  E-value=0.00014  Score=60.90  Aligned_cols=150  Identities=11%  Similarity=-0.009  Sum_probs=106.4

Q ss_pred             CCCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHHcCCHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETG--LIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDG-FCKAQKFDDAKR  229 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~g--i~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~a-y~k~g~~e~A~~  229 (344)
                      ..|++++|...|++..+..  ...-+..+-..|.+.|++++|...|+...+..  |+...+..+... +...+...+|..
T Consensus        18 ~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~a~~   95 (176)
T 2r5s_A           18 QQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQQAAESPELK   95 (176)
T ss_dssp             HTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHhhcccchHHH
Confidence            4678999999999866532  11113357778889999999999998875542  344433322211 122223345778


Q ss_pred             HHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          230 IFRKMQSNGIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       230 vf~~M~~~gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      .|++..+.  .| +...|..+-.+|...|++++|...|++..+..-.+ +...+..+...+...|+.++|...+.....
T Consensus        96 ~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A           96 RLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            88887764  33 57888999999999999999999999988764322 356788889999999999999988886543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.84  E-value=0.0026  Score=62.04  Aligned_cols=146  Identities=16%  Similarity=0.145  Sum_probs=96.1

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAVAMLDGLCK----DGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCK----AQKFD  225 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k----~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k----~g~~e  225 (344)
                      .+++++|.+.|++..+.|.......|-..|..    .+++++|++.|+...+.|   +...+..|-.+|..    .++.+
T Consensus        92 ~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~  168 (490)
T 2xm6_A           92 PQDYAQAVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYV  168 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHH
Confidence            45778888888877776633222234444555    567788888887776664   55666666666666    66777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHH
Q 047934          226 DAKRIFRKMQSNGIAPNAFSYNLLIQGLYK----CNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCR----ERGVEKA  297 (344)
Q Consensus       226 ~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k----~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~----~G~~e~a  297 (344)
                      +|.+.|++..+.|   +...+..|-..|..    .++.++|.+.|++..+.|   +..++..+-..|..    .++.++|
T Consensus       169 ~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A  242 (490)
T 2xm6_A          169 MAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQS  242 (490)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHH
Confidence            7777777777664   66677777777766    677777777777766654   45555555555554    5667777


Q ss_pred             HHHHHHHHHCC
Q 047934          298 QSVIATLKEKG  308 (344)
Q Consensus       298 ~~l~~~M~~~G  308 (344)
                      .++++...+.|
T Consensus       243 ~~~~~~a~~~~  253 (490)
T 2xm6_A          243 RVLFSQSAEQG  253 (490)
T ss_dssp             HHHHHHHHTTT
T ss_pred             HHHHHHHHHCC
Confidence            77766665554

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.84  E-value=0.0011  Score=60.20  Aligned_cols=156  Identities=8%  Similarity=-0.060  Sum_probs=113.1

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCHH--------HHHHHHHHcCCHHHHHHHHHHHHHcCC---CCC--HHHHHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPNAV--------AMLDGLCKDGLIQEAMKLFGLMREKGT---IPE--VVIYTAVVD  216 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~~~--------tli~~~~k~g~~~~A~~lf~~M~~~g~---~pd--~~tyn~LI~  216 (344)
                      .+...|++++|.+.+.+..+..-.....        .+...+...|++++|+..|+...+...   .+.  ..+|+.+-.
T Consensus        84 ~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~  163 (293)
T 2qfc_A           84 MLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIAN  163 (293)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Confidence            3445788999999998877653321111        234456677899999999998775321   122  558899999


Q ss_pred             HHHHcCCHHHHHHHHHHHHH---C-CCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHH
Q 047934          217 GFCKAQKFDDAKRIFRKMQS---N-GIAP--NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA----GHSP-NVTTFVGLV  285 (344)
Q Consensus       217 ay~k~g~~e~A~~vf~~M~~---~-gi~p--d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~----gv~p-d~~ty~~lL  285 (344)
                      .|...|++++|...|++..+   . +-.+  ...+|..+-.+|.+.|++++|++.+++..+.    +... -..+|..+-
T Consensus       164 ~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg  243 (293)
T 2qfc_A          164 IYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRG  243 (293)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            99999999999999998763   1 1111  1258889999999999999999999987643    2111 156788888


Q ss_pred             HHHHHcCCHHHH-HHHHHHHH
Q 047934          286 DGLCRERGVEKA-QSVIATLK  305 (344)
Q Consensus       286 ~a~~~~G~~e~a-~~l~~~M~  305 (344)
                      ..|.+.|+.++| ...++...
T Consensus       244 ~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          244 ECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHcCCcHHHHHHHHHHHH
Confidence            889999999999 77676644

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.82  E-value=0.00063  Score=58.68  Aligned_cols=159  Identities=13%  Similarity=0.018  Sum_probs=114.6

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCC----HHH----------------HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLIPN----AVA----------------MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIY  211 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~----~~t----------------li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~ty  211 (344)
                      ...|++++|+..|++..+.+  |+    +..                +-..|.+.|++++|...|+...+.. +-+...+
T Consensus        15 ~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~   91 (208)
T 3urz_A           15 IEAGQNGQAVSYFRQTIALN--IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCL   91 (208)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhC--CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHH
Confidence            34688999999999987643  22    123                6677889999999999999988763 3378899


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHcCCCCCHHHH--HHHHHH
Q 047934          212 TAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK--LEEAVEYCIEMLEAGHSPNVTTF--VGLVDG  287 (344)
Q Consensus       212 n~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~--~~~A~~lf~~M~~~gv~pd~~ty--~~lL~a  287 (344)
                      ..+-.+|...|++++|...|++..+.. +-+...|..+-.+|...|.  .+.+...+....    .|+...+  ...-.+
T Consensus        92 ~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~a~~~~g~~  166 (208)
T 3urz_A           92 EACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS----SPTKMQYARYRDGLS  166 (208)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC-------CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh----CCCchhHHHHHHHHH
Confidence            999999999999999999999998853 2257788888888766554  334555554432    4454433  333444


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHH
Q 047934          288 LCRERGVEKAQSVIATLKEKGFLVNDKAVREFL  320 (344)
Q Consensus       288 ~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll  320 (344)
                      +...|++++|...|+...+  +.|+......+.
T Consensus       167 ~~~~~~~~~A~~~~~~al~--l~P~~~~~~~l~  197 (208)
T 3urz_A          167 KLFTTRYEKARNSLQKVIL--RFPSTEAQKTLD  197 (208)
T ss_dssp             HHHHHTHHHHHHHHHHHTT--TSCCHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHH--hCCCHHHHHHHH
Confidence            5568999999999998876  467766555444

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=97.78  E-value=0.00093  Score=57.93  Aligned_cols=142  Identities=13%  Similarity=0.068  Sum_probs=116.4

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC----CHHHHHHHHHHH
Q 047934          159 EADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQ----KFDDAKRIFRKM  234 (344)
Q Consensus       159 ~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g----~~e~A~~vf~~M  234 (344)
                      +|++.|.+..+.|....+..|=..|...++.++|++.|+...+.|   +...+..|=.+|.. +    +.++|...|++.
T Consensus         4 eA~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A   79 (212)
T 3rjv_A            4 EPGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKA   79 (212)
T ss_dssp             CTTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHH
Confidence            678889988888765444456677778999999999999998876   67778778777877 6    899999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHH----cCCHHHHHHHHHHHH
Q 047934          235 QSNGIAPNAFSYNLLIQGLYK----CNKLEEAVEYCIEMLEAGHS-PNVTTFVGLVDGLCR----ERGVEKAQSVIATLK  305 (344)
Q Consensus       235 ~~~gi~pd~~tyn~LI~ay~k----~g~~~~A~~lf~~M~~~gv~-pd~~ty~~lL~a~~~----~G~~e~a~~l~~~M~  305 (344)
                      .+.|   +...+..|-..|..    .++.++|++.|++..+.|.. -+...+..|-..|..    .++.++|.+.+....
T Consensus        80 ~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~  156 (212)
T 3rjv_A           80 VEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             HHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             HHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            8876   77888888888877    88999999999998877521 016777778788877    789999999999998


Q ss_pred             HC
Q 047934          306 EK  307 (344)
Q Consensus       306 ~~  307 (344)
                      +.
T Consensus       157 ~~  158 (212)
T 3rjv_A          157 SL  158 (212)
T ss_dssp             HT
T ss_pred             Hc
Confidence            87

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.75  E-value=0.00035  Score=63.63  Aligned_cols=142  Identities=13%  Similarity=-0.048  Sum_probs=108.7

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHHcCCHHHHHHH
Q 047934          156 PPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREK----GTIPE-VVIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~----g~~pd-~~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      ++++|...|++.            ...|...|++++|.+.|....+.    |-.++ ..+|+.+-.+|.+.|++++|...
T Consensus        32 ~~~~A~~~~~~a------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~   99 (292)
T 1qqe_A           32 KFEEAADLCVQA------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDS   99 (292)
T ss_dssp             HHHHHHHHHHHH------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cHHHHHHHHHHH------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHH
Confidence            378888888776            34678899999999999876543    32222 57899999999999999999999


Q ss_pred             HHHHHHCCCC-CC----HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHHcCCHHHHHH
Q 047934          231 FRKMQSNGIA-PN----AFSYNLLIQGLYKC-NKLEEAVEYCIEMLEAGH-SPN----VTTFVGLVDGLCRERGVEKAQS  299 (344)
Q Consensus       231 f~~M~~~gi~-pd----~~tyn~LI~ay~k~-g~~~~A~~lf~~M~~~gv-~pd----~~ty~~lL~a~~~~G~~e~a~~  299 (344)
                      |++..+.... .+    ..+|+.+-..|... |++++|++.|++..+..- ..+    ..++..+-..+...|++++|.+
T Consensus       100 ~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~  179 (292)
T 1qqe_A          100 LENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASD  179 (292)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence            9887553100 02    45788899999996 999999999998765311 001    3567888899999999999999


Q ss_pred             HHHHHHHCCC
Q 047934          300 VIATLKEKGF  309 (344)
Q Consensus       300 l~~~M~~~Gi  309 (344)
                      .++...+...
T Consensus       180 ~~~~al~~~~  189 (292)
T 1qqe_A          180 IYSKLIKSSM  189 (292)
T ss_dssp             HHHHHHHTTS
T ss_pred             HHHHHHHHHh
Confidence            9999988643

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=97.74  E-value=0.00036  Score=57.15  Aligned_cols=135  Identities=8%  Similarity=-0.095  Sum_probs=96.0

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLIPN----AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A  227 (344)
                      ...|++++|+..+......  .|+    +..+-..|.+.|++++|.+.|+...+.. +-+..+|..+-.+|.+.|++++|
T Consensus         8 ~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A   84 (150)
T 4ga2_A            8 RSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKA   84 (150)
T ss_dssp             CCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHH
Confidence            3456788888888775542  221    2356778889999999999999887753 23678888899999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHH-HHHHHHcCCCC-CHHHHHHHHHHHHHcC
Q 047934          228 KRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEY-CIEMLEAGHSP-NVTTFVGLVDGLCRER  292 (344)
Q Consensus       228 ~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~l-f~~M~~~gv~p-d~~ty~~lL~a~~~~G  292 (344)
                      ...|+...+.. +-+...|..+-..|.+.|+.++|.+. +++..+.  .| +...|...-..+...|
T Consensus        85 ~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           85 VECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhC
Confidence            99998887752 12577888888888899988776655 4665553  34 4555655555554444

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=97.74  E-value=0.00063  Score=63.89  Aligned_cols=177  Identities=11%  Similarity=-0.008  Sum_probs=128.1

Q ss_pred             CCCCCHHHHHHHHHHHHHCC-CCCCH-------HHHHHHHHHcCCHHHHHHHHHHHHHc--CCC----CCHHHHHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETG-LIPNA-------VAMLDGLCKDGLIQEAMKLFGLMREK--GTI----PEVVIYTAVVDG  217 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~g-i~p~~-------~tli~~~~k~g~~~~A~~lf~~M~~~--g~~----pd~~tyn~LI~a  217 (344)
                      ...|++++|.+.|++..+.- -.++.       ..+-..|...|+.++|+..+....+.  ...    ....+++.+-..
T Consensus       114 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  193 (383)
T 3ulq_A          114 LDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATN  193 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHH
Confidence            44789999999999987631 11221       24677888899999999999877643  111    124678888899


Q ss_pred             HHHcCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc----CC-CCCHHHHHHHHHH
Q 047934          218 FCKAQKFDDAKRIFRKMQSN----GIA-PNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA----GH-SPNVTTFVGLVDG  287 (344)
Q Consensus       218 y~k~g~~e~A~~vf~~M~~~----gi~-pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~----gv-~pd~~ty~~lL~a  287 (344)
                      |...|++++|...|++..+.    +-. ....+|..+-.+|...|++++|.+.|++..+.    +. .-...++..+-..
T Consensus       194 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  273 (383)
T 3ulq_A          194 FLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQI  273 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHH
Confidence            99999999999999887643    111 11247888999999999999999999988762    33 3346678888999


Q ss_pred             HHHcCCHHHHHHHHHHHHHC----CCcccHHHHHHHHhccCCCCh
Q 047934          288 LCRERGVEKAQSVIATLKEK----GFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       288 ~~~~G~~e~a~~l~~~M~~~----Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      |.+.|+.++|.+.++...+.    +-......+..+-..|...|.
T Consensus       274 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~  318 (383)
T 3ulq_A          274 HYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPD  318 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCC
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCc
Confidence            99999999999999987653    222223334556666666664

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=97.73  E-value=0.00012  Score=68.77  Aligned_cols=179  Identities=12%  Similarity=-0.009  Sum_probs=121.5

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCC-CC-----HHHHHHHHHHcCCHHHHHHHHHHHHHc----C-CCCCHHHHHHHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLI-PN-----AVAMLDGLCKDGLIQEAMKLFGLMREK----G-TIPEVVIYTAVVDGF  218 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~-p~-----~~tli~~~~k~g~~~~A~~lf~~M~~~----g-~~pd~~tyn~LI~ay  218 (344)
                      .++..|++++|+++|++..+.+-. +.     +..+-..|...|++++|.+.|++..+.    + ......++..+-..|
T Consensus        57 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~  136 (411)
T 4a1s_A           57 RLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTL  136 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHH
Confidence            445578899999999998876432 11     124667778889999999999877543    1 122456778888889


Q ss_pred             HHcCCHHHHHHHHHHHHHC----C-CCCCHHHHHHHHHHHHHcCC-----------------HHHHHHHHHHHHHc----
Q 047934          219 CKAQKFDDAKRIFRKMQSN----G-IAPNAFSYNLLIQGLYKCNK-----------------LEEAVEYCIEMLEA----  272 (344)
Q Consensus       219 ~k~g~~e~A~~vf~~M~~~----g-i~pd~~tyn~LI~ay~k~g~-----------------~~~A~~lf~~M~~~----  272 (344)
                      ...|++++|...|++..+.    + ......+|..+-..|...|+                 +++|++.+++..+.    
T Consensus       137 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~  216 (411)
T 4a1s_A          137 KVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDL  216 (411)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHc
Confidence            9999999999998887543    1 11124577888888888899                 88888888876542    


Q ss_pred             CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC----Cc-ccHHHHHHHHhccCCCCh
Q 047934          273 GHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLKEKG----FL-VNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       273 gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G----i~-p~~~~~~~Ll~~yak~g~  328 (344)
                      +-.+ ...++..+-..|...|++++|.+.+++..+..    -. ....++..+-..|...|.
T Consensus       217 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  278 (411)
T 4a1s_A          217 GDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQ  278 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcC
Confidence            1111 23466777778888899999988888776531    11 112245555555655554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.70  E-value=0.0012  Score=51.06  Aligned_cols=92  Identities=13%  Similarity=0.100  Sum_probs=56.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~  258 (344)
                      +-..+...|++++|.++|+...+.. +.+..++..+-..|...|++++|...|++..+.. ..+...|..+-.+|.+.|+
T Consensus        22 ~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~   99 (133)
T 2lni_A           22 KGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAALEAMKD   99 (133)
T ss_dssp             HHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHHhh
Confidence            4555566666677776666665432 2255666666666666666666666666665532 1245566666666666666


Q ss_pred             HHHHHHHHHHHHHc
Q 047934          259 LEEAVEYCIEMLEA  272 (344)
Q Consensus       259 ~~~A~~lf~~M~~~  272 (344)
                      +++|.+.|++..+.
T Consensus       100 ~~~A~~~~~~~~~~  113 (133)
T 2lni_A          100 YTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            66666666665543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=97.69  E-value=0.0013  Score=61.83  Aligned_cols=177  Identities=10%  Similarity=-0.018  Sum_probs=128.5

Q ss_pred             CCCCCHHHHHHHHHHHHHCC-CCCCH-------HHHHHHHHHcCCHHHHHHHHHHHHHc--CC---CC-CHHHHHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETG-LIPNA-------VAMLDGLCKDGLIQEAMKLFGLMREK--GT---IP-EVVIYTAVVDG  217 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~g-i~p~~-------~tli~~~~k~g~~~~A~~lf~~M~~~--g~---~p-d~~tyn~LI~a  217 (344)
                      +..|++++|+..|++..+.- -.++.       ..+-..|...|++++|...+....+.  ..   .+ ...+++.+-.+
T Consensus       112 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  191 (378)
T 3q15_A          112 FDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGN  191 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHH
Confidence            34789999999999887531 11222       13677888999999999999876643  11   11 25678889999


Q ss_pred             HHHcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCCCHHHHHHHHHHH
Q 047934          218 FCKAQKFDDAKRIFRKMQSN----GIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA----GHSPNVTTFVGLVDGL  288 (344)
Q Consensus       218 y~k~g~~e~A~~vf~~M~~~----gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~----gv~pd~~ty~~lL~a~  288 (344)
                      |...|++++|...|++..+.    +-.+ ...++..|-.+|...|++++|.+.|++....    +......++..+-..|
T Consensus       192 y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  271 (378)
T 3q15_A          192 YDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTL  271 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHH
Confidence            99999999999999887652    2111 2357788889999999999999999988761    2222367788888999


Q ss_pred             HHcCCHHHHHHHHHHHHHCC----CcccHHHHHHHHhccCCCCh
Q 047934          289 CRERGVEKAQSVIATLKEKG----FLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       289 ~~~G~~e~a~~l~~~M~~~G----i~p~~~~~~~Ll~~yak~g~  328 (344)
                      .+.|+.++|.+.++...+..    -......+..+-..|...+.
T Consensus       272 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~  315 (378)
T 3q15_A          272 CKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVD  315 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCC
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCc
Confidence            99999999999999887642    22234455555566666554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.68  E-value=0.0011  Score=51.17  Aligned_cols=101  Identities=11%  Similarity=0.085  Sum_probs=87.1

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 047934          205 IPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGL  284 (344)
Q Consensus       205 ~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~l  284 (344)
                      ..+...+..+-..|...|++++|...|++..+.. ..+...|..+..+|...|++++|++.|++..+.. ..+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            3467788889999999999999999999988753 2368889999999999999999999999988753 2367888889


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHC
Q 047934          285 VDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       285 L~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      ...|...|++++|.+.++...+.
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHh
Confidence            99999999999999999998765

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=97.68  E-value=0.0019  Score=60.40  Aligned_cols=127  Identities=15%  Similarity=-0.001  Sum_probs=104.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCC--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPE--------------VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNA  243 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd--------------~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~  243 (344)
                      .+-..|.+.|++++|...|+...+..-...              ..+|..+-.+|.+.|++++|...|++..+.. .-+.
T Consensus       152 ~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~  230 (336)
T 1p5q_A          152 ERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNE  230 (336)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcH
Confidence            466778899999999999998887642221              5899999999999999999999999998863 2368


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH-HHHHHHHHH
Q 047934          244 FSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKA-QSVIATLKE  306 (344)
Q Consensus       244 ~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a-~~l~~~M~~  306 (344)
                      ..|..+-.+|...|++++|+..|++..+.. .-+...+..+-..+...|+.+++ ..++..|..
T Consensus       231 ~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          231 KGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            899999999999999999999999988753 22577888888889999999988 556666654

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=97.67  E-value=0.00032  Score=72.27  Aligned_cols=168  Identities=9%  Similarity=-0.005  Sum_probs=129.6

Q ss_pred             CCCCCHHHHHHHHHHHHH------CCCCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 047934          152 PISEPPQEADEIFKKMKE------TGLIPN----AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKA  221 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~------~gi~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~  221 (344)
                      ...|++++|++.|++..+      ....|+    +..+-..|.+.|++++|++.|+...+.. +-+...|..+-.+|...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            457899999999999871      112232    2346678889999999999999988753 23778899999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          222 QKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVI  301 (344)
Q Consensus       222 g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~  301 (344)
                      |++++|...|++..+..- -+...|..+-.+|.+.|++++ ++.|++..+.. .-+...|..+-.++.+.|++++|.+.+
T Consensus       481 g~~~~A~~~~~~al~l~P-~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFP-GELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999999887531 256788899999999999999 99999988753 225778888999999999999999999


Q ss_pred             HHHHHCCCccc-HHHHHHHHhccCC
Q 047934          302 ATLKEKGFLVN-DKAVREFLDKKAP  325 (344)
Q Consensus       302 ~~M~~~Gi~p~-~~~~~~Ll~~yak  325 (344)
                      +...+.  .|+ ...+..+-..|..
T Consensus       558 ~~al~l--~P~~~~a~~~~~~~~~~  580 (681)
T 2pzi_A          558 DEVPPT--SRHFTTARLTSAVTLLS  580 (681)
T ss_dssp             HTSCTT--STTHHHHHHHHHHHTC-
T ss_pred             Hhhccc--CcccHHHHHHHHHHHHc
Confidence            887654  344 3444444444443

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=97.66  E-value=0.0011  Score=56.40  Aligned_cols=117  Identities=13%  Similarity=-0.043  Sum_probs=96.1

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLIPNA---VAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~~---~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      +..|++++|.+.|++..    .|+.   ..+-..|.+.|++++|++.|+...+.. +.+..+|..+-.+|...|++++|.
T Consensus        17 ~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~   91 (213)
T 1hh8_A           17 ADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAI   91 (213)
T ss_dssp             HHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHHHHH
Confidence            34688999999999874    3333   347778889999999999999988764 347889999999999999999999


Q ss_pred             HHHHHHHHCCCC--------------C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Q 047934          229 RIFRKMQSNGIA--------------P-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG  273 (344)
Q Consensus       229 ~vf~~M~~~gi~--------------p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g  273 (344)
                      ..|+...+..-.              | ....|..+-.+|.+.|++++|.+.|++..+..
T Consensus        92 ~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           92 KDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            999999885311              1 23688899999999999999999999988753

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=97.65  E-value=0.00078  Score=61.34  Aligned_cols=147  Identities=10%  Similarity=-0.007  Sum_probs=74.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCC-CC-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHHHcCCHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLI-PN-AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVV-DGFCKAQKFDDAKRI  230 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~-p~-~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI-~ay~k~g~~e~A~~v  230 (344)
                      .|++++|..+|++..+..-. +. +..+-..|.+.|++++|..+++.....  .|+........ ..+...+..++|...
T Consensus       130 ~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l~~~~~~~~a~~~  207 (287)
T 3qou_A          130 ESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIELLXQAADTPEIQQ  207 (287)
T ss_dssp             TTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHHHhhcccCccHHH
Confidence            45566666666665543211 00 123455555666666666666555433  23332222211 124444555555555


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          231 FRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS-PNVTTFVGLVDGLCRERGVEKAQSVIAT  303 (344)
Q Consensus       231 f~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~-pd~~ty~~lL~a~~~~G~~e~a~~l~~~  303 (344)
                      |++..+.. .-+...+..+-..|...|++++|+..|.+.....-. .+...+..+...+...|+.++|...+..
T Consensus       208 l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~  280 (287)
T 3qou_A          208 LQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRR  280 (287)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            55555432 124555666666666666666666666666554211 1244555666666666666655555544

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=97.65  E-value=0.00069  Score=56.18  Aligned_cols=121  Identities=7%  Similarity=0.077  Sum_probs=90.1

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCC-C-CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHHcCCH--
Q 047934          150 NEPISEPPQEADEIFKKMKETGLI-P-NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDG-FCKAQKF--  224 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~-p-~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~a-y~k~g~~--  224 (344)
                      .+...|++++|...|++..+..-. + .+..+-..|...|++++|...|+...+.. +.+...+..+-.+ |...|++  
T Consensus        19 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           19 QFASQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CCC-----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhhccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            455678999999999987765421 1 13356778888999999999999887653 2367777777777 7788998  


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          225 DDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       225 e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      ++|...|+...+.. .-+...|..+...|...|++++|...|++..+.
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            99999999988753 225778888888999999999999999998875

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=97.64  E-value=0.0024  Score=50.06  Aligned_cols=97  Identities=13%  Similarity=0.096  Sum_probs=46.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVD  286 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~  286 (344)
                      +...|..+-..|.+.|++++|...|+...... .-+...|..+-.+|...|++++|...|++..... .-+...+..+-.
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            34444444455555555555555555444432 1134445555555555555555555555544432 113444444555


Q ss_pred             HHHHcCCHHHHHHHHHHHH
Q 047934          287 GLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       287 a~~~~G~~e~a~~l~~~M~  305 (344)
                      +|...|++++|.+.+....
T Consensus        86 ~~~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHH
Confidence            5555555555555555443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.63  E-value=0.0016  Score=49.82  Aligned_cols=114  Identities=13%  Similarity=0.037  Sum_probs=90.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVD  286 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~  286 (344)
                      +...+..+-..+...|++++|...|++..... ..+...|..+..+|...|++++|.+.+++..... ..+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            45677888889999999999999999987753 2367889999999999999999999999988753 235778888889


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhcc
Q 047934          287 GLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKK  323 (344)
Q Consensus       287 a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~y  323 (344)
                      .|...|++++|.+.++...+..-. +...+..+-..+
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~  124 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELDPD-NETYKSNLKIAE  124 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHH
Confidence            999999999999999998875321 334444444333

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=97.61  E-value=0.0016  Score=49.85  Aligned_cols=94  Identities=14%  Similarity=0.216  Sum_probs=61.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCC----HHHHHHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGI--APN----AFSYNLLIQ  251 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi--~pd----~~tyn~LI~  251 (344)
                      .+-..+...|++++|..+|+...+.. +.+..++..+-..|...|++++|...|+.......  .++    ..+|..+..
T Consensus         9 ~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la~   87 (131)
T 1elr_A            9 ELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHH
Confidence            34556667777777777777766543 33566667777777777777777777776655321  112    556666677


Q ss_pred             HHHHcCCHHHHHHHHHHHHHc
Q 047934          252 GLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       252 ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      +|.+.|++++|.+.|++..+.
T Consensus        88 ~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           88 SYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHh
Confidence            777777777777777776664

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=97.61  E-value=0.00091  Score=55.40  Aligned_cols=122  Identities=9%  Similarity=0.071  Sum_probs=97.5

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHHcCCH--H
Q 047934          184 CKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQG-LYKCNKL--E  260 (344)
Q Consensus       184 ~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~a-y~k~g~~--~  260 (344)
                      ...|++++|...|+...+.. +.+..+|..+-.+|...|++++|...|++..+.. ..+...|..+..+ |...|++  +
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            45678888999998877653 3477899999999999999999999999987753 2267788888888 7789998  9


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          261 EAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       261 ~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      +|...|++..... .-+...+..+...|...|++++|...+....+..
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            9999999988763 2256778888889999999999999999988763

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=97.59  E-value=0.0028  Score=48.43  Aligned_cols=109  Identities=11%  Similarity=0.166  Sum_probs=87.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCC----HHHH
Q 047934          208 VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG--HSPN----VTTF  281 (344)
Q Consensus       208 ~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g--v~pd----~~ty  281 (344)
                      ...|..+-..|...|++++|...|+...... ..+...|..+..+|...|++++|...+++.....  ..++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4567778888999999999999999988753 3367889999999999999999999999987652  1223    6778


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHH
Q 047934          282 VGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREF  319 (344)
Q Consensus       282 ~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~L  319 (344)
                      ..+...+...|++++|.+.+....+..  |+......+
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l  118 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKC  118 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHH
Confidence            888899999999999999999988753  444444433

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.58  E-value=0.0057  Score=48.05  Aligned_cols=90  Identities=17%  Similarity=0.056  Sum_probs=46.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPE----VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLY  254 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd----~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~  254 (344)
                      +-..+...|++++|.++|+...+.  .|+    ..+|..+-..|...|++++|...|+...+.. ..+...|..+-.+|.
T Consensus        34 ~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~  110 (148)
T 2dba_A           34 EGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRRSQALE  110 (148)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHHHHHHH
Confidence            444455556666666666555443  233    3445555555555555555555555554431 113444555555555


Q ss_pred             HcCCHHHHHHHHHHHHH
Q 047934          255 KCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       255 k~g~~~~A~~lf~~M~~  271 (344)
                      ..|++++|.+.|++..+
T Consensus       111 ~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          111 KLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555555444

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=97.58  E-value=0.0016  Score=62.48  Aligned_cols=128  Identities=10%  Similarity=0.002  Sum_probs=109.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQK-FDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~-~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      +-..+.+.|++++|++.|+...+.. +-+..+|+.+-.+|...|+ +++|+..|++..+..-. +...|..+-.+|.+.|
T Consensus       103 lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~~~~~g  180 (382)
T 2h6f_A          103 FRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLR  180 (382)
T ss_dssp             HHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcc
Confidence            4556778899999999999988753 3368899999999999997 99999999999886422 6789999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGF  309 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi  309 (344)
                      ++++|+..|++..+.. .-+...|..+-.++...|++++|.+.++.+.+..-
T Consensus       181 ~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P  231 (382)
T 2h6f_A          181 DPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV  231 (382)
T ss_dssp             CCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT
T ss_pred             CHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            9999999999998863 23688899999999999999999999999987643

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=97.58  E-value=0.0024  Score=47.87  Aligned_cols=95  Identities=12%  Similarity=-0.006  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 047934          210 IYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLC  289 (344)
Q Consensus       210 tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~  289 (344)
                      .+..+...+...|++++|...|+...... ..+...|..+..+|...|++++|...+++..... ..+...+..+..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            34444444445555555555555444321 1134444445555555555555555555544431 113444444445555


Q ss_pred             HcCCHHHHHHHHHHHHH
Q 047934          290 RERGVEKAQSVIATLKE  306 (344)
Q Consensus       290 ~~G~~e~a~~l~~~M~~  306 (344)
                      ..|++++|.+.+....+
T Consensus        84 ~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HTTCHHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            55555555555554443

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=97.57  E-value=0.00069  Score=60.57  Aligned_cols=155  Identities=14%  Similarity=-0.021  Sum_probs=110.0

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHcCCHHHHHHHHHHHHHc----CCC-CCHHHHHHHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIPNA-------VAMLDGLCKDGLIQEAMKLFGLMREK----GTI-PEVVIYTAVVDGF  218 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p~~-------~tli~~~~k~g~~~~A~~lf~~M~~~----g~~-pd~~tyn~LI~ay  218 (344)
                      ++..|++++|..+|++..+..-. +.       ..+-..|...|++++|.++|+...+.    +.. ....++..+-..|
T Consensus        15 ~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~   93 (338)
T 3ro2_A           15 LCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTL   93 (338)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHH
Confidence            34578899999999998876422 21       14677788899999999999876432    211 1356778888889


Q ss_pred             HHcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHHcCC--------------------HHHHHHHHHHHHHc-
Q 047934          219 CKAQKFDDAKRIFRKMQSNGI-APN----AFSYNLLIQGLYKCNK--------------------LEEAVEYCIEMLEA-  272 (344)
Q Consensus       219 ~k~g~~e~A~~vf~~M~~~gi-~pd----~~tyn~LI~ay~k~g~--------------------~~~A~~lf~~M~~~-  272 (344)
                      ...|++++|...|++..+..- ..+    ..+|..+-..|...|+                    +++|.+.+++.... 
T Consensus        94 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~  173 (338)
T 3ro2_A           94 KVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLV  173 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            999999999999888654210 112    3477888888888888                    88888888876532 


Q ss_pred             ---CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          273 ---GHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       273 ---gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                         +-.+ ...++..+...|...|++++|.+.++...+
T Consensus       174 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  211 (338)
T 3ro2_A          174 TALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLL  211 (338)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence               1111 134566777778888999999888887664

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=97.56  E-value=0.00022  Score=63.82  Aligned_cols=151  Identities=14%  Similarity=0.068  Sum_probs=110.4

Q ss_pred             HHHHHHHHHHHHHC----CCCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHc----CC-CCCHHHHHHHHHHHHHcCC
Q 047934          157 PQEADEIFKKMKET----GLIPN----AVAMLDGLCKDGLIQEAMKLFGLMREK----GT-IPEVVIYTAVVDGFCKAQK  223 (344)
Q Consensus       157 ~~~A~~lf~~M~~~----gi~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~----g~-~pd~~tyn~LI~ay~k~g~  223 (344)
                      +++|.+.+++..+.    +..+.    +..+-..|...|++++|.++|+...+.    +. .....++..+...|...|+
T Consensus       159 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  238 (338)
T 3ro2_A          159 LQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  238 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCC
Confidence            77888888765432    21111    224677788899999999999987643    11 1123478889999999999


Q ss_pred             HHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCC-CCHHHHHHHHHHHHHcCC
Q 047934          224 FDDAKRIFRKMQSNGI-APN----AFSYNLLIQGLYKCNKLEEAVEYCIEMLEA----GHS-PNVTTFVGLVDGLCRERG  293 (344)
Q Consensus       224 ~e~A~~vf~~M~~~gi-~pd----~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~----gv~-pd~~ty~~lL~a~~~~G~  293 (344)
                      +++|...+++..+... ..+    ..++..+...|...|++++|.+.+++....    +-. ....++..+...|...|+
T Consensus       239 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  318 (338)
T 3ro2_A          239 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGN  318 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            9999999988764210 012    567888999999999999999999987653    111 124467788888999999


Q ss_pred             HHHHHHHHHHHHHC
Q 047934          294 VEKAQSVIATLKEK  307 (344)
Q Consensus       294 ~e~a~~l~~~M~~~  307 (344)
                      +++|.+.+++..+.
T Consensus       319 ~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          319 HDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHHH
Confidence            99999999988764

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.54  E-value=0.0021  Score=50.96  Aligned_cols=90  Identities=13%  Similarity=0.097  Sum_probs=56.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          181 DGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLE  260 (344)
Q Consensus       181 ~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~  260 (344)
                      ..|.+.|++++|++.|++..+.. +-+..+|..+-.+|.+.|++++|...|++..+.. .-+...|..+-.+|...|+++
T Consensus        21 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~   98 (126)
T 4gco_A           21 NEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVAMREWS   98 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHCCCHH
Confidence            34566677777777776665542 2356666666666667777777777766665532 124556666666666667777


Q ss_pred             HHHHHHHHHHHc
Q 047934          261 EAVEYCIEMLEA  272 (344)
Q Consensus       261 ~A~~lf~~M~~~  272 (344)
                      +|++.|++..+.
T Consensus        99 ~A~~~~~~al~l  110 (126)
T 4gco_A           99 KAQRAYEDALQV  110 (126)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            776666666553

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.53  E-value=0.00095  Score=52.91  Aligned_cols=129  Identities=12%  Similarity=0.065  Sum_probs=94.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-CHHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGT-IPE----VVIYTAVVDGFCKAQKFDDAKRIFRKMQSN----GIAP-NAFSYN  247 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~-~pd----~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~----gi~p-d~~tyn  247 (344)
                      .+-..|...|++++|+..|++..+..- ..+    ..++..+-..|...|++++|...+++..+.    +-.+ ....+.
T Consensus        14 ~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   93 (164)
T 3ro3_A           14 NLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCY   93 (164)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHH
Confidence            456677788999999999987654311 012    247788888999999999999999887552    1111 145677


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          248 LLIQGLYKCNKLEEAVEYCIEMLEA----GHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       248 ~LI~ay~k~g~~~~A~~lf~~M~~~----gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      .+-..|...|++++|.+.+++....    +..+ ...++..+-..|...|+.++|.+.+++..+
T Consensus        94 ~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           94 SLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            8888899999999999999887643    2111 134567778888899999999999988664

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=97.53  E-value=0.0003  Score=65.37  Aligned_cols=151  Identities=13%  Similarity=0.048  Sum_probs=110.5

Q ss_pred             HHHHHHHHHHHHHC----CCCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCC----HHHHHHHHHHHHHcCC
Q 047934          157 PQEADEIFKKMKET----GLIPN----AVAMLDGLCKDGLIQEAMKLFGLMREKG-TIPE----VVIYTAVVDGFCKAQK  223 (344)
Q Consensus       157 ~~~A~~lf~~M~~~----gi~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~g-~~pd----~~tyn~LI~ay~k~g~  223 (344)
                      +++|.+.+++..+.    +..+.    +..+-..|...|++++|.+.|++..+.. -.++    ..++..+-..|...|+
T Consensus       163 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  242 (406)
T 3sf4_A          163 LQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  242 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            77888888765432    21111    2246778888999999999999876431 0122    3478889999999999


Q ss_pred             HHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHHcCC
Q 047934          224 FDDAKRIFRKMQSN----GIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH-SPN----VTTFVGLVDGLCRERG  293 (344)
Q Consensus       224 ~e~A~~vf~~M~~~----gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv-~pd----~~ty~~lL~a~~~~G~  293 (344)
                      +++|...+++..+.    +..+ ...+|..+-..|.+.|++++|.+.+++.....- ..+    ..++..+-..|...|+
T Consensus       243 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  322 (406)
T 3sf4_A          243 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGN  322 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            99999999987642    1111 156788999999999999999999998765311 112    5567788888999999


Q ss_pred             HHHHHHHHHHHHHC
Q 047934          294 VEKAQSVIATLKEK  307 (344)
Q Consensus       294 ~e~a~~l~~~M~~~  307 (344)
                      +++|.+.+....+.
T Consensus       323 ~~~A~~~~~~al~~  336 (406)
T 3sf4_A          323 HDQAMHFAEKHLEI  336 (406)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999986643

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.52  E-value=0.0035  Score=49.72  Aligned_cols=97  Identities=16%  Similarity=0.155  Sum_probs=82.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 047934          209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGL  288 (344)
Q Consensus       209 ~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~  288 (344)
                      ..+..+=..|.+.|++++|...|++..+.. +-+...|..+-.+|.+.|++++|++.|++..+.. .-+...|..+-.+|
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            445556678899999999999999987753 3368899999999999999999999999988753 23578899999999


Q ss_pred             HHcCCHHHHHHHHHHHHHC
Q 047934          289 CRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       289 ~~~G~~e~a~~l~~~M~~~  307 (344)
                      ...|++++|.+.|+...+.
T Consensus        92 ~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH
Confidence            9999999999999998874

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=97.52  E-value=0.00079  Score=63.20  Aligned_cols=150  Identities=10%  Similarity=0.014  Sum_probs=86.6

Q ss_pred             CCCHHHHHHHHHHHHHC----CCCC----CHHHHHHHHHHcCCHHHHHHHHHHHHHc----CC-CCCHHHHHHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKET----GLIP----NAVAMLDGLCKDGLIQEAMKLFGLMREK----GT-IPEVVIYTAVVDGFCK  220 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~----gi~p----~~~tli~~~~k~g~~~~A~~lf~~M~~~----g~-~pd~~tyn~LI~ay~k  220 (344)
                      .|++++|.+.|++..+.    +..+    .+..+-..|...|++++|.+.|++..+.    +. .....++..+-..|.+
T Consensus       197 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~  276 (383)
T 3ulq_A          197 LKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYK  276 (383)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHH
Confidence            56677777777765532    1111    1123556666777777777777766541    22 3345667777777777


Q ss_pred             cCCHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcC
Q 047934          221 AQKFDDAKRIFRKMQSN----GIAPNAFSYNLLIQGLYKCNK---LEEAVEYCIEMLEAGHSPN-VTTFVGLVDGLCRER  292 (344)
Q Consensus       221 ~g~~e~A~~vf~~M~~~----gi~pd~~tyn~LI~ay~k~g~---~~~A~~lf~~M~~~gv~pd-~~ty~~lL~a~~~~G  292 (344)
                      .|++++|...|++..+.    +-......+..+-..|...|+   +++|+.++++.   +..++ ...+..+-..|...|
T Consensus       277 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g  353 (383)
T 3ulq_A          277 LGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYHERK  353 (383)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCC
Confidence            77777777777765442    111112234555556666666   55565555544   22222 334556666777777


Q ss_pred             CHHHHHHHHHHHHH
Q 047934          293 GVEKAQSVIATLKE  306 (344)
Q Consensus       293 ~~e~a~~l~~~M~~  306 (344)
                      +.++|.+.++...+
T Consensus       354 ~~~~A~~~~~~al~  367 (383)
T 3ulq_A          354 NFQKASAYFLKVEQ  367 (383)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            77777777776553

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.52  E-value=0.0018  Score=53.70  Aligned_cols=92  Identities=13%  Similarity=0.059  Sum_probs=52.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~  258 (344)
                      +-..+.+.|++++|...|+...+.. +-+...|..+-.+|...|++++|...|++..+..- -+...|..+-.+|.+.|+
T Consensus        42 lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P-~~~~~~~~lg~~~~~lg~  119 (151)
T 3gyz_A           42 YAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK-NDYTPVFHTGQCQLRLKA  119 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS-SCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCC
Confidence            3445555666666666666655542 22455566666666666666666666666655321 134555566666666666


Q ss_pred             HHHHHHHHHHHHHc
Q 047934          259 LEEAVEYCIEMLEA  272 (344)
Q Consensus       259 ~~~A~~lf~~M~~~  272 (344)
                      +++|...|++..+.
T Consensus       120 ~~eA~~~~~~al~l  133 (151)
T 3gyz_A          120 PLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            66666666665553

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=97.50  E-value=0.0015  Score=59.92  Aligned_cols=152  Identities=11%  Similarity=-0.042  Sum_probs=86.8

Q ss_pred             CCCCHHHHHHHHHHHHHC----CCCC----CHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKET----GLIP----NAVAMLDGLCKDGLIQEAMKLFGLMREK----GTIP-EVVIYTAVVDGFC  219 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~----gi~p----~~~tli~~~~k~g~~~~A~~lf~~M~~~----g~~p-d~~tyn~LI~ay~  219 (344)
                      ..|++++|.+.|.+..+.    +-..    .+..+-..|.+.|++++|+..|+...+.    |-.. -..+++.+-..|.
T Consensus        48 ~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~  127 (307)
T 2ifu_A           48 NAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLME  127 (307)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            355666666666654432    1100    0112455566667777777777765432    1111 1345666666666


Q ss_pred             HcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHH
Q 047934          220 KAQKFDDAKRIFRKMQSN----GIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNV-----TTFVGLVDGLC  289 (344)
Q Consensus       220 k~g~~e~A~~vf~~M~~~----gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~-----~ty~~lL~a~~  289 (344)
                      . |++++|...|++..+.    |-.. ...+|..+-..|.+.|++++|+..|++....-..-..     .++..+...+.
T Consensus       128 ~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~  206 (307)
T 2ifu_A          128 P-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQL  206 (307)
T ss_dssp             T-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             c-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHH
Confidence            6 7777777777766542    1000 1346666777777777777777777777665322221     24444555555


Q ss_pred             HcCCHHHHHHHHHHHH
Q 047934          290 RERGVEKAQSVIATLK  305 (344)
Q Consensus       290 ~~G~~e~a~~l~~~M~  305 (344)
                      ..|++++|...++...
T Consensus       207 ~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          207 HRADYVAAQKCVRESY  222 (307)
T ss_dssp             HTTCHHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHh
Confidence            6677777777777777

>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=97.49  E-value=0.0017  Score=58.86  Aligned_cols=149  Identities=11%  Similarity=0.038  Sum_probs=107.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-CCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CC----HHHHHH
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKG-TIPEV----VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIA-PN----AFSYNL  248 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g-~~pd~----~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~-pd----~~tyn~  248 (344)
                      .+..+...|++++|.++++...+.. ..++.    ..+..+...|...+++++|...|++..+.... .+    ..+|+.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            3677889999999999999987643 22332    23445667777788999999999999874222 23    347999


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc-----CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCccc-HHHHH
Q 047934          249 LIQGLYKCNKLEEAVEYCIEMLEA-----GHSPN-VTTFVGLVDGLCRERGVEKAQSVIATLKEK----GFLVN-DKAVR  317 (344)
Q Consensus       249 LI~ay~k~g~~~~A~~lf~~M~~~-----gv~pd-~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~----Gi~p~-~~~~~  317 (344)
                      +-..|...|++++|+..|++..+.     +..+. ..+|..+-..|.+.|++++|.+.++...+.    +.... ..++.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            999999999999999999998741     22222 236778888999999999999999877643    32222 44555


Q ss_pred             HHHhccCCCC
Q 047934          318 EFLDKKAPFS  327 (344)
Q Consensus       318 ~Ll~~yak~g  327 (344)
                      .+=..|.+.|
T Consensus       241 ~lg~~~~~~g  250 (293)
T 3u3w_A          241 QRGECLRKLE  250 (293)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHhC
Confidence            5555555555

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.49  E-value=0.0027  Score=52.07  Aligned_cols=93  Identities=9%  Similarity=0.020  Sum_probs=73.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      .+-..|.+.|++++|++.|+...+.. +-+...|..+-.+|.+.|++++|+..|++..+.. .-+...|..+-.+|.+.|
T Consensus        16 ~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g   93 (164)
T 3sz7_A           16 SEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLARFDMA   93 (164)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcc
Confidence            35667778889999999888877653 2367888888888888899999999888887753 225778888888888889


Q ss_pred             CHHHHHHHHHHHHHc
Q 047934          258 KLEEAVEYCIEMLEA  272 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~  272 (344)
                      ++++|.+.|++..+.
T Consensus        94 ~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           94 DYKGAKEAYEKGIEA  108 (164)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999998888887764

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=97.49  E-value=0.0035  Score=48.71  Aligned_cols=87  Identities=13%  Similarity=0.040  Sum_probs=39.7

Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          182 GLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEE  261 (344)
Q Consensus       182 ~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~  261 (344)
                      .+.+.|++++|.+.|+...+.. +.+...|..+-.+|.+.|++++|...|++..+.. .-+...|..+-.+|...|++++
T Consensus        13 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~   90 (126)
T 3upv_A           13 EYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYAS   90 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhCHHH
Confidence            3444555555555555444331 1234444444445555555555555554444431 1123444444444445555555


Q ss_pred             HHHHHHHHH
Q 047934          262 AVEYCIEML  270 (344)
Q Consensus       262 A~~lf~~M~  270 (344)
                      |.+.|++..
T Consensus        91 A~~~~~~al   99 (126)
T 3upv_A           91 ALETLDAAR   99 (126)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555444443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=97.48  E-value=0.00085  Score=62.25  Aligned_cols=157  Identities=13%  Similarity=-0.016  Sum_probs=111.7

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPNA-------VAMLDGLCKDGLIQEAMKLFGLMREK----GTIP-EVVIYTAVVDG  217 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~~-------~tli~~~~k~g~~~~A~~lf~~M~~~----g~~p-d~~tyn~LI~a  217 (344)
                      .++..|++++|...|++..+.+-. +.       ..+-..|...|++++|...|+...+.    +-.+ ...++..+-..
T Consensus        18 ~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~   96 (406)
T 3sf4_A           18 RLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNT   96 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence            344578899999999998876422 21       23667888899999999999876433    2111 25677888888


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHHcCC--------------------HHHHHHHHHHHHHc
Q 047934          218 FCKAQKFDDAKRIFRKMQSNGI-APN----AFSYNLLIQGLYKCNK--------------------LEEAVEYCIEMLEA  272 (344)
Q Consensus       218 y~k~g~~e~A~~vf~~M~~~gi-~pd----~~tyn~LI~ay~k~g~--------------------~~~A~~lf~~M~~~  272 (344)
                      |...|++++|...|++..+..- ..+    ..+|..+-..|...|+                    +++|.+.+++....
T Consensus        97 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~  176 (406)
T 3sf4_A           97 LKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSL  176 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            9999999999999887754310 012    4478888888888999                    89998888876542


Q ss_pred             ----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          273 ----GHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       273 ----gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                          +-.+ ...++..+-..|...|++++|.+.+++..+.
T Consensus       177 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  216 (406)
T 3sf4_A          177 VTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLI  216 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHH
T ss_pred             HHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence                2111 1345677777888889999998888877643

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=97.47  E-value=0.00045  Score=64.87  Aligned_cols=179  Identities=12%  Similarity=-0.035  Sum_probs=124.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHHC----CCCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHc----C-CCCCHHHHHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKET----GLIPN----AVAMLDGLCKDGLIQEAMKLFGLMREK----G-TIPEVVIYTAVVD  216 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~----gi~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~----g-~~pd~~tyn~LI~  216 (344)
                      .++..|++++|.+.|++..+.    +..|.    +..+-..|...|++++|.+.|+...+.    + ......++..+-.
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~  174 (411)
T 4a1s_A           95 AYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGN  174 (411)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHH
Confidence            344478999999999987653    11121    124677888999999999999877543    1 1123567888899


Q ss_pred             HHHHcCC-----------------HHHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Q 047934          217 GFCKAQK-----------------FDDAKRIFRKMQSN----GI-APNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH  274 (344)
Q Consensus       217 ay~k~g~-----------------~e~A~~vf~~M~~~----gi-~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv  274 (344)
                      .|...|+                 +++|...+++..+.    +- .....+|..+-..|...|++++|.+.|++..+..-
T Consensus       175 ~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  254 (411)
T 4a1s_A          175 VYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAR  254 (411)
T ss_dssp             HHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHH
Confidence            9999999                 99999998876442    11 11235788889999999999999999998765311


Q ss_pred             -CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC----Cc-ccHHHHHHHHhccCCCCh
Q 047934          275 -SPN----VTTFVGLVDGLCRERGVEKAQSVIATLKEKG----FL-VNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       275 -~pd----~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G----i~-p~~~~~~~Ll~~yak~g~  328 (344)
                       ..+    ..++..+...|...|++++|.+.+++..+..    -. ....++..+-..|...|.
T Consensus       255 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  318 (411)
T 4a1s_A          255 EFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHE  318 (411)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCC
Confidence             112    2367788888999999999999998876531    11 113445555555555554

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=97.46  E-value=0.002  Score=64.11  Aligned_cols=137  Identities=8%  Similarity=-0.051  Sum_probs=97.0

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          186 DGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEY  265 (344)
Q Consensus       186 ~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~l  265 (344)
                      .|+.++|.+.|++..+.. +-+...|..+-..|...|++++|...|++..+.. .-+...|..+-.+|.+.|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            477899999998876542 2367889999999999999999999999998763 23578899999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCC
Q 047934          266 CIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPF  326 (344)
Q Consensus       266 f~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~  326 (344)
                      |++..+.. .-+...+..+-..|...|++++|.+.++...+..- -+...+..+...|...
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~  138 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRL  138 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHT
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHh
Confidence            99988763 23578888999999999999999999999887632 2345566666666555

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.46  E-value=0.0011  Score=49.53  Aligned_cols=91  Identities=12%  Similarity=-0.020  Sum_probs=44.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHc
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAP--NAFSYNLLIQGLYKC  256 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~p--d~~tyn~LI~ay~k~  256 (344)
                      +-..+...|++++|...|+...+.. +.+..++..+-.+|...|++++|...|++..+.. ..  +...|..+..+|.+.
T Consensus        12 ~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~~~~   89 (112)
T 2kck_A           12 EGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADALRYI   89 (112)
T ss_dssp             HHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHHHHH
Confidence            3444445555555555555544432 1234445555555555555555555555554431 11  244455555555555


Q ss_pred             -CCHHHHHHHHHHHHH
Q 047934          257 -NKLEEAVEYCIEMLE  271 (344)
Q Consensus       257 -g~~~~A~~lf~~M~~  271 (344)
                       |++++|.+.|.+...
T Consensus        90 ~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           90 EGKEVEAEIAEARAKL  105 (112)
T ss_dssp             SSCSHHHHHHHHHHGG
T ss_pred             hCCHHHHHHHHHHHhh
Confidence             555555555555443

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=97.46  E-value=0.0084  Score=44.75  Aligned_cols=94  Identities=17%  Similarity=0.082  Sum_probs=79.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 047934          177 VAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC  256 (344)
Q Consensus       177 ~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~  256 (344)
                      ..+...+...|++++|.+.|+...+.. +.+...+..+-..|...|++++|...+++..+.. ..+...|..+..+|.+.
T Consensus         8 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~   85 (118)
T 1elw_A            8 KEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFL   85 (118)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHH
Confidence            346677888999999999999887753 3478888999999999999999999999988753 22578889999999999


Q ss_pred             CCHHHHHHHHHHHHHc
Q 047934          257 NKLEEAVEYCIEMLEA  272 (344)
Q Consensus       257 g~~~~A~~lf~~M~~~  272 (344)
                      |++++|.+.|++..+.
T Consensus        86 ~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           86 NRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             TCHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHHHHc
Confidence            9999999999988765

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=97.45  E-value=0.0028  Score=51.73  Aligned_cols=91  Identities=11%  Similarity=-0.012  Sum_probs=58.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~  258 (344)
                      +-..+...|++++|...|+...... +.+...|..+-.+|...|++++|...|++..... .-+...|..+-.+|...|+
T Consensus        27 ~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~  104 (148)
T 2vgx_A           27 LAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLLQXGE  104 (148)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCC
Confidence            4555666777777777777665542 2356666666667777777777777777766542 1244566666667777777


Q ss_pred             HHHHHHHHHHHHH
Q 047934          259 LEEAVEYCIEMLE  271 (344)
Q Consensus       259 ~~~A~~lf~~M~~  271 (344)
                      +++|.+.|++..+
T Consensus       105 ~~~A~~~~~~al~  117 (148)
T 2vgx_A          105 LAEAESGLFLAQE  117 (148)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7777777766654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.45  E-value=0.0031  Score=50.59  Aligned_cols=92  Identities=8%  Similarity=-0.081  Sum_probs=59.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~  258 (344)
                      +-..+.+.|++++|...|+...... +-+...|..+-.+|...|++++|...|+...... .-+...|..+-.+|...|+
T Consensus        24 ~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~  101 (142)
T 2xcb_A           24 LGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQLGD  101 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            4455666777777777777666542 2356666666677777777777777777766542 1244556666667777777


Q ss_pred             HHHHHHHHHHHHHc
Q 047934          259 LEEAVEYCIEMLEA  272 (344)
Q Consensus       259 ~~~A~~lf~~M~~~  272 (344)
                      +++|.+.|++..+.
T Consensus       102 ~~~A~~~~~~al~~  115 (142)
T 2xcb_A          102 LDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            77777777766543

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=97.44  E-value=0.0086  Score=46.42  Aligned_cols=98  Identities=13%  Similarity=0.164  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 047934          208 VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDG  287 (344)
Q Consensus       208 ~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a  287 (344)
                      ...|..+-..+.+.|++++|...|++..+.. .-+...|..+-.+|.+.|++++|++.|++..+.. .-+...|..+-.+
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            3456667778889999999999999987753 2367899999999999999999999999988753 2357788889999


Q ss_pred             HHHcCCHHHHHHHHHHHHHC
Q 047934          288 LCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       288 ~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +...|++++|.+.++...+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            99999999999999988765

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.44  E-value=0.0052  Score=57.04  Aligned_cols=155  Identities=15%  Similarity=0.100  Sum_probs=112.6

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETGLIPNA-------VAMLDGLCKDGLIQEAMKLFGLMREKGT-IPE----VVIYTAVVDGFCK  220 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~p~~-------~tli~~~~k~g~~~~A~~lf~~M~~~g~-~pd----~~tyn~LI~ay~k  220 (344)
                      ..|++++|..++++.....-..+.       ..+-..|...|++++|.+.+++..+..- ..+    ..++..+-..|..
T Consensus        26 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~  105 (373)
T 1hz4_A           26 NDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFA  105 (373)
T ss_dssp             HTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHH
Confidence            368899999999997764322121       1244667788999999999988764210 112    2346677788899


Q ss_pred             cCCHHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC--C--CHHHHHHHHHHHH
Q 047934          221 AQKFDDAKRIFRKMQSN----GIA--P-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS--P--NVTTFVGLVDGLC  289 (344)
Q Consensus       221 ~g~~e~A~~vf~~M~~~----gi~--p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~--p--d~~ty~~lL~a~~  289 (344)
                      .|++++|...+++..+.    +..  | ....+..+-..|...|++++|...+++.....-.  +  ...+|..+-..+.
T Consensus       106 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  185 (373)
T 1hz4_A          106 QGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSL  185 (373)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHH
Confidence            99999999999887653    222  2 2446677888899999999999999988764221  1  2456777888888


Q ss_pred             HcCCHHHHHHHHHHHHHC
Q 047934          290 RERGVEKAQSVIATLKEK  307 (344)
Q Consensus       290 ~~G~~e~a~~l~~~M~~~  307 (344)
                      ..|++++|...++.....
T Consensus       186 ~~g~~~~A~~~l~~a~~~  203 (373)
T 1hz4_A          186 ARGDLDNARSQLNRLENL  203 (373)
T ss_dssp             HHTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            999999999999987653

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=97.43  E-value=0.00079  Score=61.73  Aligned_cols=140  Identities=11%  Similarity=0.047  Sum_probs=72.4

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHHcCCHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREK----GTIP-EVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~----g~~p-d~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      .+++++|..+|...            ...|...|++++|.+.|.+..+.    +-.. -..+|+.+-.+|.+.|++++|.
T Consensus        29 ~~~~~~A~~~~~~a------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~   96 (307)
T 2ifu_A           29 KPDYDSAASEYAKA------------AVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAV   96 (307)
T ss_dssp             SCCHHHHHHHHHHH------------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGH
T ss_pred             CCCHHHHHHHHHHH------------HHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHH
Confidence            35566666666553            23555666666666666554322    1000 1345566666666666666666


Q ss_pred             HHHHHHHHC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHHcCCHHHHH
Q 047934          229 RIFRKMQSN----GIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA----GHSP-NVTTFVGLVDGLCRERGVEKAQ  298 (344)
Q Consensus       229 ~vf~~M~~~----gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~----gv~p-d~~ty~~lL~a~~~~G~~e~a~  298 (344)
                      ..|++..+.    |-.. -..+|+.+-..|.. |++++|++.|++..+.    +-.. ...++..+-..|...|++++|.
T Consensus        97 ~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~  175 (307)
T 2ifu_A           97 QYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAA  175 (307)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHH
Confidence            666554321    1000 12345555555555 6666666666654432    1000 1244555566666666666666


Q ss_pred             HHHHHHHH
Q 047934          299 SVIATLKE  306 (344)
Q Consensus       299 ~l~~~M~~  306 (344)
                      +.++...+
T Consensus       176 ~~~~~al~  183 (307)
T 2ifu_A          176 ASLQKEKS  183 (307)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66665544

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=97.42  E-value=0.0048  Score=52.18  Aligned_cols=128  Identities=13%  Similarity=0.013  Sum_probs=90.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCC-C---C-----------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTI-P---E-----------VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN  242 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~-p---d-----------~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd  242 (344)
                      .+-..+.+.|++++|.++|....+..-. +   .           ..+|..+-.+|.+.|++++|...++...+.. ..+
T Consensus        43 ~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~  121 (198)
T 2fbn_A           43 EEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNN  121 (198)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccc
Confidence            3556778899999999999988764211 1   1           2788888889999999999999999988752 336


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH-HHHHHHHHC
Q 047934          243 AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQ-SVIATLKEK  307 (344)
Q Consensus       243 ~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~-~l~~~M~~~  307 (344)
                      ...|..+-.+|...|++++|.+.|++..+.. .-+...+..+...+...++.+++. ..+..|...
T Consensus       122 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          122 VKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC------------
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            7788899999999999999999999987652 225666777777777777666665 555555444

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=97.41  E-value=0.004  Score=54.98  Aligned_cols=127  Identities=12%  Similarity=0.041  Sum_probs=100.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CC-CHHHHHHHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPE---VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGI-AP-NAFSYNLLIQG  252 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd---~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi-~p-d~~tyn~LI~a  252 (344)
                      .+-..+.+.|++++|...|+.+.+..- -+   ...+..+-.+|.+.|++++|...|+...+..- .+ ....|..+-.+
T Consensus        20 ~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~   98 (261)
T 3qky_A           20 ERAMEFYNQGKYDRAIEYFKAVFTYGR-THEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMC   98 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHGGGCS-CSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhCC-CCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHH
Confidence            356677889999999999999987631 13   67888888999999999999999999988521 12 24567777888


Q ss_pred             HHH--------cCCHHHHHHHHHHHHHcCCCCC-HHHH-----------------HHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          253 LYK--------CNKLEEAVEYCIEMLEAGHSPN-VTTF-----------------VGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       253 y~k--------~g~~~~A~~lf~~M~~~gv~pd-~~ty-----------------~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      |.+        .|++++|+..|++.....  |+ ....                 ..+-..|...|++++|...++.+.+
T Consensus        99 ~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~  176 (261)
T 3qky_A           99 YYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFD  176 (261)
T ss_dssp             HHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            888        999999999999988753  22 1222                 4456778899999999999999887


Q ss_pred             C
Q 047934          307 K  307 (344)
Q Consensus       307 ~  307 (344)
                      .
T Consensus       177 ~  177 (261)
T 3qky_A          177 A  177 (261)
T ss_dssp             H
T ss_pred             H
Confidence            5

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.39  E-value=0.0036  Score=46.50  Aligned_cols=99  Identities=16%  Similarity=0.079  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHH
Q 047934          208 VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS-PNVTTFVGLVD  286 (344)
Q Consensus       208 ~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~-pd~~ty~~lL~  286 (344)
                      ..++..+-..+...|++++|...|++..+.. ..+...|..+-.+|...|++++|.+.|++..+..-. .+...+..+..
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            4456667777888899999999998887653 236778888888889999999999999888775311 14777888888


Q ss_pred             HHHHc-CCHHHHHHHHHHHHHC
Q 047934          287 GLCRE-RGVEKAQSVIATLKEK  307 (344)
Q Consensus       287 a~~~~-G~~e~a~~l~~~M~~~  307 (344)
                      .|... |+.++|.+.+....+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHhCCHHHHHHHHHHHhhc
Confidence            88889 9999999999887765

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.38  E-value=0.0091  Score=48.76  Aligned_cols=99  Identities=10%  Similarity=-0.017  Sum_probs=79.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVD  286 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~  286 (344)
                      +...+..+-..|.+.|++++|...|++..+.. .-+...|..+-.+|.+.|++++|+..|++..+.. .-+...|..+-.
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45667777788888999999999998887753 2267788888888999999999999998887753 225777888888


Q ss_pred             HHHHcCCHHHHHHHHHHHHHC
Q 047934          287 GLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       287 a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +|...|++++|.+.+....+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            888899999999988887764

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.37  E-value=0.00024  Score=55.33  Aligned_cols=83  Identities=14%  Similarity=0.176  Sum_probs=34.8

Q ss_pred             CCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          187 GLIQEAMKLFGLMREKG--TIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVE  264 (344)
Q Consensus       187 g~~~~A~~lf~~M~~~g--~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~  264 (344)
                      |++++|+..|+...+.+  -+-+..++..+-.+|...|++++|...|++..+..-. +...|..+-.+|.+.|++++|+.
T Consensus         4 g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ---CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHHHH
Confidence            44444555554444432  1112334444444444445555555544444443211 23444444444444444444444


Q ss_pred             HHHHHH
Q 047934          265 YCIEML  270 (344)
Q Consensus       265 lf~~M~  270 (344)
                      .|++..
T Consensus        83 ~~~~al   88 (117)
T 3k9i_A           83 LLLKII   88 (117)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444443

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=97.37  E-value=0.00068  Score=55.50  Aligned_cols=134  Identities=9%  Similarity=0.016  Sum_probs=98.3

Q ss_pred             HcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          185 KDGLIQEAMKLFGLMREKGTIP-EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAV  263 (344)
Q Consensus       185 k~g~~~~A~~lf~~M~~~g~~p-d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~  263 (344)
                      ..|++++|++.+......  .| +...+-.|-..|.+.|++++|...|++..+.. .-+...|..+-.+|.+.|++++|+
T Consensus         9 ~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~   85 (150)
T 4ga2_A            9 SKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAV   85 (150)
T ss_dssp             CHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHH
Confidence            446788888888765432  22 23445567788999999999999999988753 226889999999999999999999


Q ss_pred             HHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHH-HHHHHHCCCccc-HHHHHHHHhccCC
Q 047934          264 EYCIEMLEAGHSP-NVTTFVGLVDGLCRERGVEKAQSV-IATLKEKGFLVN-DKAVREFLDKKAP  325 (344)
Q Consensus       264 ~lf~~M~~~gv~p-d~~ty~~lL~a~~~~G~~e~a~~l-~~~M~~~Gi~p~-~~~~~~Ll~~yak  325 (344)
                      ..|++..+.  .| +..+|..+-..|.+.|+.+++.+. ++...+.  .|+ ..+|...-..+..
T Consensus        86 ~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~  146 (150)
T 4ga2_A           86 ECYRRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLLDC  146 (150)
T ss_dssp             HHHHHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHH
Confidence            999998875  34 577888899999999998876655 5666653  343 3444443333333

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=97.35  E-value=0.0067  Score=47.35  Aligned_cols=93  Identities=16%  Similarity=0.050  Sum_probs=80.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      .+-..+...|++++|...|....+.. +.+...|..+-.+|...|++++|...|+...+.. .-+...|..+-.+|...|
T Consensus        14 ~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~   91 (137)
T 3q49_B           14 EQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEME   91 (137)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHHh
Confidence            46778889999999999999887764 3468899999999999999999999999988753 226788999999999999


Q ss_pred             CHHHHHHHHHHHHHc
Q 047934          258 KLEEAVEYCIEMLEA  272 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~  272 (344)
                      ++++|...|++..+.
T Consensus        92 ~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           92 SYDEAIANLQRAYSL  106 (137)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHH
Confidence            999999999988753

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=97.35  E-value=0.0021  Score=58.47  Aligned_cols=146  Identities=10%  Similarity=0.048  Sum_probs=111.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHHHc
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLI-QGLYKC  256 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI-~ay~k~  256 (344)
                      .+-..+...|++++|.+.|+...+.. +-+...+..|-..|...|++++|..+++.....  .|+........ ..+.+.
T Consensus       122 ~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l~~~  198 (287)
T 3qou_A          122 QQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIELLXQ  198 (287)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHHHhh
Confidence            45667788999999999999987753 236788999999999999999999999988664  45655433333 336677


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCc-ccHHHHHHHHhccCCCC
Q 047934          257 NKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFL-VNDKAVREFLDKKAPFS  327 (344)
Q Consensus       257 g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~-p~~~~~~~Ll~~yak~g  327 (344)
                      +..++|...+++..... .-+...+..+-..+...|+.++|...+..+.+..-. .+...+..+...|...|
T Consensus       199 ~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          199 AADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             cccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            88888999998887753 336788889999999999999999999999886422 22455666666655444

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.34  E-value=0.0041  Score=51.38  Aligned_cols=99  Identities=12%  Similarity=0.033  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 047934          208 VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDG  287 (344)
Q Consensus       208 ~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a  287 (344)
                      ...+..+-..+.+.|++++|...|+...... +-+...|..+-.+|.+.|++++|++.|++..... +-+...|..+-.+
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~  113 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHH
Confidence            4466667778899999999999999998763 2368899999999999999999999999998763 2256788889999


Q ss_pred             HHHcCCHHHHHHHHHHHHHCC
Q 047934          288 LCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       288 ~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      |...|++++|.+.|+...+..
T Consensus       114 ~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHcCCHHHHHHHHHHHHHhC
Confidence            999999999999999988764

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=97.32  E-value=0.0087  Score=65.96  Aligned_cols=163  Identities=12%  Similarity=0.077  Sum_probs=104.9

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLIPN-AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~p~-~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      .+...|++++|.+.+....+..-.|. -+.+..+|++.+++++...+.    +   .++...|..+=..|...|++++|.
T Consensus      1143 ~~~~lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~ 1215 (1630)
T 1xi4_A         1143 AANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAK 1215 (1630)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHH
Confidence            34447889999999987665441111 124778888888877533332    1   235556666777777777777777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH------------------------cCCCCCHHHHHHH
Q 047934          229 RIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE------------------------AGHSPNVTTFVGL  284 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~------------------------~gv~pd~~ty~~l  284 (344)
                      .+|...         ..|..+..+|++.|++++|.+.+.+-..                        .++..+...+..+
T Consensus      1216 ~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeel 1286 (1630)
T 1xi4_A         1216 LLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEEL 1286 (1630)
T ss_pred             HHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHH
Confidence            777763         2677777777777777777666544211                        1133356667788


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCChH
Q 047934          285 VDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSS  329 (344)
Q Consensus       285 L~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~~  329 (344)
                      +..|.+.|.+++|..+++.-.... .-....|+.|-..|++....
T Consensus      1287 i~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~pe 1330 (1630)
T 1xi4_A         1287 INYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQ 1330 (1630)
T ss_pred             HHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHH
Confidence            888999999999999997665443 33445666666667766653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.31  E-value=0.0047  Score=57.29  Aligned_cols=155  Identities=12%  Similarity=-0.040  Sum_probs=108.5

Q ss_pred             CCCCCHHHHHHHHHHHHHC----CCC--CCHH----HHHHHHHHcCCHHHHHHHHHHHHHcCCC----CCHHHHHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKET----GLI--PNAV----AMLDGLCKDGLIQEAMKLFGLMREKGTI----PEVVIYTAVVDG  217 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~----gi~--p~~~----tli~~~~k~g~~~~A~~lf~~M~~~g~~----pd~~tyn~LI~a  217 (344)
                      ...|++++|.+.+++..+.    +..  |...    .+-..|...|++++|..++++..+..-.    ....+|..+-..
T Consensus       104 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  183 (373)
T 1hz4_A          104 FAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQC  183 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHH
Confidence            3478899999999987652    222  2221    2556778899999999999987654221    134678888889


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCC-CHHHHH-----HHHHHHHHcCCHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHH
Q 047934          218 FCKAQKFDDAKRIFRKMQSNGIAP-NAFSYN-----LLIQGLYKCNKLEEAVEYCIEMLEAGHSP---NVTTFVGLVDGL  288 (344)
Q Consensus       218 y~k~g~~e~A~~vf~~M~~~gi~p-d~~tyn-----~LI~ay~k~g~~~~A~~lf~~M~~~gv~p---d~~ty~~lL~a~  288 (344)
                      +...|++++|...+++.....-.+ +...|.     .++..+...|+.++|...+++.......+   ....+..+...+
T Consensus       184 ~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~  263 (373)
T 1hz4_A          184 SLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQ  263 (373)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHH
Confidence            999999999999999886531111 111222     23345779999999999998876533211   133566777888


Q ss_pred             HHcCCHHHHHHHHHHHHH
Q 047934          289 CRERGVEKAQSVIATLKE  306 (344)
Q Consensus       289 ~~~G~~e~a~~l~~~M~~  306 (344)
                      ...|+.++|.++++....
T Consensus       264 ~~~g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          264 ILLGEFEPAEIVLEELNE  281 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            899999999999988754

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.31  E-value=0.0024  Score=53.39  Aligned_cols=123  Identities=10%  Similarity=-0.019  Sum_probs=90.0

Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHHcC
Q 047934          183 LCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSN----GIA-PNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       183 ~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~----gi~-pd~~tyn~LI~ay~k~g  257 (344)
                      ....|++++|.++++.+... ......++..+-..|...|++++|...|++..+.    +.. ....++..+-..|...|
T Consensus         2 ~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            2 AFEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             -----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             ccccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            34678999999966655432 2246788899999999999999999999987662    222 13467888888999999


Q ss_pred             CHHHHHHHHHHHHHc----CCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          258 KLEEAVEYCIEMLEA----GHSP--NVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~----gv~p--d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      ++++|.+.+++....    +-.+  ....+..+-..+...|++++|.+.+.+..+
T Consensus        81 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  135 (203)
T 3gw4_A           81 NWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLV  135 (203)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            999999999987653    2111  234567777888899999999999998764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.29  E-value=0.0034  Score=57.79  Aligned_cols=140  Identities=11%  Similarity=-0.026  Sum_probs=102.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHc
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN--AFSYNLLIQGLYKC  256 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd--~~tyn~LI~ay~k~  256 (344)
                      +...+...|++++|.++|..+...+  |+....-.+-..|.+.+++++|+..|+...... .|.  ...+..+=.+|.+.
T Consensus       108 yA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~L  184 (282)
T 4f3v_A          108 FAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANL  184 (282)
T ss_dssp             HHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHC
Confidence            5577888999999999998876543  444355555568889999999999998554321 111  23567777889999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhcc
Q 047934          257 NKLEEAVEYCIEMLEAGHSPN--VTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKK  323 (344)
Q Consensus       257 g~~~~A~~lf~~M~~~gv~pd--~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~y  323 (344)
                      |++++|+..|++.......|.  .......-.++.+.|+.++|..+|+.+...  .|+......|.+.-
T Consensus       185 G~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~~aL~~~~  251 (282)
T 4f3v_A          185 ALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVAAALKDPS  251 (282)
T ss_dssp             TCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHHHHHHCTT
T ss_pred             CCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHHhCCC
Confidence            999999999999875444354  335556667778899999999999999886  34456666665543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.29  E-value=0.0064  Score=48.67  Aligned_cols=97  Identities=14%  Similarity=-0.029  Sum_probs=79.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 047934          209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGL  288 (344)
Q Consensus       209 ~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~  288 (344)
                      ..+..+-..+.+.|++++|...|+...... .-+...|..+-.+|.+.|++++|+..|++..... .-+...+..+-.+|
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHH
Confidence            445556677889999999999999988753 2367888899999999999999999999988763 23566777888889


Q ss_pred             HHcCCHHHHHHHHHHHHHC
Q 047934          289 CRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       289 ~~~G~~e~a~~l~~~M~~~  307 (344)
                      ...|++++|.+.++...+.
T Consensus        97 ~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            9999999999999988764

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=97.28  E-value=0.0088  Score=47.94  Aligned_cols=98  Identities=10%  Similarity=0.083  Sum_probs=83.6

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 047934          208 VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDG  287 (344)
Q Consensus       208 ~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a  287 (344)
                      ...+..+-..+...|++++|...|+...+.. ..+...|..+..+|...|++++|.+.|++..... ..+...|..+-..
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            3566777788899999999999999987753 2368889999999999999999999999988753 3367788888899


Q ss_pred             HHHcCCHHHHHHHHHHHHHC
Q 047934          288 LCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       288 ~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +...|++++|.+.+....+.
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~  110 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKV  110 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh
Confidence            99999999999999998875

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.25  E-value=0.016  Score=52.19  Aligned_cols=150  Identities=10%  Similarity=0.010  Sum_probs=106.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC---CCC--HHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPE-----VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGI---APN--AFSYN  247 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd-----~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi---~pd--~~tyn  247 (344)
                      ..+..+...|++++|.+.+....+..-...     ...+..+...|...|++++|...|++..+...   .+.  ..+|+
T Consensus        80 ~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 2qfc_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHH
Confidence            357788899999999999988776532211     12334455667788999999999998875321   122  55899


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc-CCCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCcc-cHHHH
Q 047934          248 LLIQGLYKCNKLEEAVEYCIEMLEA-GHSPN-----VTTFVGLVDGLCRERGVEKAQSVIATLKEK----GFLV-NDKAV  316 (344)
Q Consensus       248 ~LI~ay~k~g~~~~A~~lf~~M~~~-gv~pd-----~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~----Gi~p-~~~~~  316 (344)
                      .+-..|...|++++|++.|++..+. ...++     ..+|..+-..|...|++++|.+.++...+.    +... -..++
T Consensus       160 ~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~  239 (293)
T 2qfc_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            9999999999999999999988732 11122     257888899999999999999999987643    1111 14455


Q ss_pred             HHHHhccCCCC
Q 047934          317 REFLDKKAPFS  327 (344)
Q Consensus       317 ~~Ll~~yak~g  327 (344)
                      ..+-..|.+.|
T Consensus       240 ~~lg~~y~~~g  250 (293)
T 2qfc_A          240 YQRGECLRKLE  250 (293)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHcC
Confidence            55555555554

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=97.25  E-value=0.0071  Score=49.24  Aligned_cols=99  Identities=9%  Similarity=-0.022  Sum_probs=82.9

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVD  286 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~  286 (344)
                      +...+..+-..+...|++++|...|+...... ..+...|..+-.+|.+.|++++|++.|++..... .-+...+..+-.
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            44566777788899999999999999987753 2378889999999999999999999999988753 225677888888


Q ss_pred             HHHHcCCHHHHHHHHHHHHHC
Q 047934          287 GLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       287 a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +|...|++++|.+.++...+.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999988764

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=97.23  E-value=0.0018  Score=66.82  Aligned_cols=169  Identities=11%  Similarity=0.085  Sum_probs=126.3

Q ss_pred             CCCHHHHHHHHHHHHHCC---------CCCC---------------HHHHHHHHHHcCCHHHHHHHHHHHHHc-C-CCCC
Q 047934          154 SEPPQEADEIFKKMKETG---------LIPN---------------AVAMLDGLCKDGLIQEAMKLFGLMREK-G-TIPE  207 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~g---------i~p~---------------~~tli~~~~k~g~~~~A~~lf~~M~~~-g-~~pd  207 (344)
                      .|+++.|.++|+.+.+..         -.|+               |...+....+.|..+.|..+|....+. . ..+.
T Consensus       391 ~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~  470 (679)
T 4e6h_A          391 NTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPD  470 (679)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTH
T ss_pred             hCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChH
Confidence            678999999999987641         0131               455677777889999999999998876 3 3344


Q ss_pred             HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC--CHHHHHHH
Q 047934          208 VVIYTAVVDGFCKA-QKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP--NVTTFVGL  284 (344)
Q Consensus       208 ~~tyn~LI~ay~k~-g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~p--d~~ty~~l  284 (344)
                      ..+..+.|..  ++ ++.+.|+.+|+...+. ..-+...|...++.....|+.+.|..+|++.......+  ....|...
T Consensus       471 lyi~~A~lE~--~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~  547 (679)
T 4e6h_A          471 IYLENAYIEY--HISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKV  547 (679)
T ss_dssp             HHHHHHHHHH--TTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHH
T ss_pred             HHHHHHHHHH--HhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            5555555543  34 4589999999998876 34467788899998889999999999999987764322  34567888


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCC
Q 047934          285 VDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFS  327 (344)
Q Consensus       285 L~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g  327 (344)
                      +.--.+.|+.+.+.++.+.+.+.  .|+......+++-|.-.+
T Consensus       548 ~~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~ry~~~~  588 (679)
T 4e6h_A          548 IFFESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTNKYKVLD  588 (679)
T ss_dssp             HHHHHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHHHTCBTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHhcCCc
Confidence            88888899999999999999876  345556666677776443

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=97.23  E-value=0.0061  Score=67.13  Aligned_cols=111  Identities=17%  Similarity=0.271  Sum_probs=66.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~  258 (344)
                      +-.++.+.|++++|.+.|..-      -|...|.-++.+|.+.|++++|.+.|....+..  ++....+.++.+|++.++
T Consensus      1111 LAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~r 1182 (1630)
T 1xi4_A         1111 LAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNR 1182 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcC
Confidence            445555566666666666332      255666667777777777777777776554432  222223346666666666


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          259 LEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       259 ~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      +++...+.    .   .++...|..+-..|...|++++|..+|...
T Consensus      1183 leele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA 1221 (1630)
T 1xi4_A         1183 LAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV 1221 (1630)
T ss_pred             HHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh
Confidence            66433322    1   345556666777777778888887777764

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=97.23  E-value=0.0085  Score=47.32  Aligned_cols=95  Identities=15%  Similarity=0.204  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCC----HHHHHHH
Q 047934          211 YTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG--HSPN----VTTFVGL  284 (344)
Q Consensus       211 yn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g--v~pd----~~ty~~l  284 (344)
                      +..|=..|.+.|++++|+..|++..+.. +-+...|+.+-.+|.+.|++++|++.|++..+..  ...+    ..+|..+
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            3334445555566666666665554431 1134555555556666666666666655544321  1111    1234444


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Q 047934          285 VDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       285 L~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      -.++...|++++|.+.|+...+
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            4555556666666666665544

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.23  E-value=0.014  Score=54.96  Aligned_cols=155  Identities=9%  Similarity=0.035  Sum_probs=111.2

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCC-C------------------HHHHHHHHHHcCCHHHHHHHHHHHHHc-CCCCCHHH-
Q 047934          152 PISEPPQEADEIFKKMKETGLIP-N------------------AVAMLDGLCKDGLIQEAMKLFGLMREK-GTIPEVVI-  210 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p-~------------------~~tli~~~~k~g~~~~A~~lf~~M~~~-g~~pd~~t-  210 (344)
                      ...|++++|+++|....+..-.. +                  ...|...|.+.|++++|.+++..+.+. +-..+..+ 
T Consensus        15 ~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   94 (434)
T 4b4t_Q           15 VNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTV   94 (434)
T ss_dssp             HHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHH
Confidence            44688999999999988753221 1                  224788999999999999999877643 11122222 


Q ss_pred             --HHHHH-HHHHHcCCHHHHHHHHHHHHH----CCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CC--CC-C
Q 047934          211 --YTAVV-DGFCKAQKFDDAKRIFRKMQS----NGIAPN-AFSYNLLIQGLYKCNKLEEAVEYCIEMLEA--GH--SP-N  277 (344)
Q Consensus       211 --yn~LI-~ay~k~g~~e~A~~vf~~M~~----~gi~pd-~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~--gv--~p-d  277 (344)
                        ...++ ..+...|..++|..++.....    .+..+. ..++..|...|...|++++|..++++....  +.  .+ .
T Consensus        95 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~  174 (434)
T 4b4t_Q           95 KVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSL  174 (434)
T ss_dssp             HHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhH
Confidence              22223 233345789999999887754    233333 567888999999999999999999987653  21  22 2


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          278 VTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       278 ~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      ..+|..+...|...|++++|..++.....
T Consensus       175 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          175 VDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            45788899999999999999999987664

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.20  E-value=0.017  Score=44.45  Aligned_cols=92  Identities=20%  Similarity=0.083  Sum_probs=59.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHH
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEV---VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN---AFSYNLLIQG  252 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~---~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd---~~tyn~LI~a  252 (344)
                      +-..+...|++++|...|+...+..-. +.   ..+..+-.+|.+.|++++|...|+......-. +   ...+..+-.+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHH
Confidence            445566777777777777776654211 22   45566666777777777777777777664211 2   4556666677


Q ss_pred             HHHcCCHHHHHHHHHHHHHc
Q 047934          253 LYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       253 y~k~g~~~~A~~lf~~M~~~  272 (344)
                      |.+.|++++|.+.|++....
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            77777777777777776654

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=97.17  E-value=0.0014  Score=55.65  Aligned_cols=128  Identities=12%  Similarity=0.032  Sum_probs=88.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-C---C-----------
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIA-P---N-----------  242 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~-p---d-----------  242 (344)
                      ....+....|.+++|.+.|+.-... ..-....+..+-..|.+.|++++|...|++..+..-. +   .           
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~   87 (198)
T 2fbn_A            9 HHSSGRENLYFQGAKKSIYDYTDEE-KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIE   87 (198)
T ss_dssp             -------------CCCSGGGCCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHH
T ss_pred             chhhhhhhhhhccccCchhhCCHHH-HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHH
Confidence            3445555666677776666532211 0113456677778889999999999999998874211 1   1           


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          243 AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       243 ~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      ...|..+-.+|.+.|++++|+..+++..... ..+...+..+-.+|...|++++|.+.+....+.
T Consensus        88 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A           88 ISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            2788899999999999999999999988763 336788888999999999999999999998765

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=97.16  E-value=0.0066  Score=56.80  Aligned_cols=175  Identities=10%  Similarity=-0.061  Sum_probs=116.8

Q ss_pred             CCCCCCCHHHHHHHHHHHHHC----CC-CCC----HHHHHHHHHHcCCHHHHHHHHHHHHHc----CCC-CCHHHHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKET----GL-IPN----AVAMLDGLCKDGLIQEAMKLFGLMREK----GTI-PEVVIYTAVV  215 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~----gi-~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~----g~~-pd~~tyn~LI  215 (344)
                      .++..|+++.|...+.+..+.    +. .+.    +..+-..|...|++++|.+.|+...+.    +-. ....+++.|-
T Consensus       150 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg  229 (378)
T 3q15_A          150 AYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIA  229 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            445578899999999876642    11 111    124667788999999999999877643    211 1235778888


Q ss_pred             HHHHHcCCHHHHHHHHHHHHH-----CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC----CCCCHHHHHHHHH
Q 047934          216 DGFCKAQKFDDAKRIFRKMQS-----NGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG----HSPNVTTFVGLVD  286 (344)
Q Consensus       216 ~ay~k~g~~e~A~~vf~~M~~-----~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g----v~pd~~ty~~lL~  286 (344)
                      ..|...|++++|...|++..+     .. .....++..+-..|.+.|+.++|.+.+++..+..    -......+..+-.
T Consensus       230 ~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~  308 (378)
T 3q15_A          230 NSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQA  308 (378)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            899999999999999998876     32 2236788899999999999999999999987642    1222334555555


Q ss_pred             HHHHcCC---HHHHHHHHHHHHHCCCcccH-HHHHHHHhccCCCCh
Q 047934          287 GLCRERG---VEKAQSVIATLKEKGFLVND-KAVREFLDKKAPFSS  328 (344)
Q Consensus       287 a~~~~G~---~e~a~~l~~~M~~~Gi~p~~-~~~~~Ll~~yak~g~  328 (344)
                      .|...++   +++|..+++   +.+..++. ..+..+-..|.+.|.
T Consensus       309 ly~~~~~~~~~~~al~~~~---~~~~~~~~~~~~~~la~~y~~~g~  351 (378)
T 3q15_A          309 VYKETVDERKIHDLLSYFE---KKNLHAYIEACARSAAAVFESSCH  351 (378)
T ss_dssp             HHSSSCCHHHHHHHHHHHH---HTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHhCCCcHHHHHHHHHHHH---hCCChhHHHHHHHHHHHHHHHCCC
Confidence            5556777   555555544   44444433 233344455555554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.15  E-value=0.011  Score=46.43  Aligned_cols=99  Identities=10%  Similarity=0.023  Sum_probs=74.6

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 047934          206 PEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN----AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTF  281 (344)
Q Consensus       206 pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd----~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty  281 (344)
                      .+...+..+-..+...|++++|...|++..+.  .|+    ...|..+-.+|...|++++|++.+++..... ..+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            35667777777888888888888888887764  455    5677778888888888888888888776652 2256677


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          282 VGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       282 ~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      ..+-.+|...|++++|.+.+....+.
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            77777788888888888888877764

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=97.15  E-value=0.0018  Score=53.92  Aligned_cols=147  Identities=12%  Similarity=0.129  Sum_probs=103.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HH
Q 047934          176 AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQG-LY  254 (344)
Q Consensus       176 ~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~a-y~  254 (344)
                      ...+-..+...|++++|...|+...+.. +-+...+..+-.+|...|++++|...|+.....  .|+...+..+... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHH
Confidence            3456677889999999999998765432 236788999999999999999999999987654  3344433332211 22


Q ss_pred             HcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcc-cHHHHHHHHhccCCCC
Q 047934          255 KCNKLEEAVEYCIEMLEAGHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLV-NDKAVREFLDKKAPFS  327 (344)
Q Consensus       255 k~g~~~~A~~lf~~M~~~gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p-~~~~~~~Ll~~yak~g  327 (344)
                      +.+...+|...|++..+.  .| +...+..+-..+...|++++|...+..+.+..=.+ +...+..+...|...|
T Consensus        86 ~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g  158 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALG  158 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHC
T ss_pred             hhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhC
Confidence            222333567888887764  34 57888889999999999999999999998764322 2345555555544433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.14  E-value=0.007  Score=47.47  Aligned_cols=94  Identities=11%  Similarity=-0.091  Sum_probs=65.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 047934          176 AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK  255 (344)
Q Consensus       176 ~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k  255 (344)
                      +..+-..+.+.|++++|...|+...+.. +-+...|..+-.++...|++++|+..|++..+..- -+...|..+-.+|.+
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHH
Confidence            4445566677788888888887776642 23666777777777777888888888777766421 145667777777777


Q ss_pred             cCCHHHHHHHHHHHHH
Q 047934          256 CNKLEEAVEYCIEMLE  271 (344)
Q Consensus       256 ~g~~~~A~~lf~~M~~  271 (344)
                      .|++++|+..|++..+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            7778887777777654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.13  E-value=0.00096  Score=51.73  Aligned_cols=110  Identities=11%  Similarity=-0.039  Sum_probs=65.3

Q ss_pred             cCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          221 AQKFDDAKRIFRKMQSNGI--APNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQ  298 (344)
Q Consensus       221 ~g~~e~A~~vf~~M~~~gi--~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~  298 (344)
                      .|++++|+..|++..+.+.  .-+...|..+-.+|.+.|++++|++.|++..+.. .-+...+..+-.++...|++++|.
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            4666777777777665431  1234566677777777777777777777766542 124566666677777777777777


Q ss_pred             HHHHHHHHC-CCcccHHHHHHHHhccCCCChHHH
Q 047934          299 SVIATLKEK-GFLVNDKAVREFLDKKAPFSSSVW  331 (344)
Q Consensus       299 ~l~~~M~~~-Gi~p~~~~~~~Ll~~yak~g~~~W  331 (344)
                      +.+....+. .-.++...|...+..|...-+..|
T Consensus        82 ~~~~~al~~~p~~~~~~~~~~ai~~~~~~l~~~~  115 (117)
T 3k9i_A           82 ELLLKIIAETSDDETIQSYKQAILFYADKLDETW  115 (117)
T ss_dssp             HHHHHHHHHHCCCHHHHHTHHHHHHHTTCTTCCC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHh
Confidence            777766543 233445555566666655444444

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.13  E-value=0.0097  Score=45.87  Aligned_cols=91  Identities=16%  Similarity=0.134  Sum_probs=74.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHH
Q 047934          214 VVDGFCKAQKFDDAKRIFRKMQSNGIAPNA---FSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPN----VTTFVGLVD  286 (344)
Q Consensus       214 LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~---~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd----~~ty~~lL~  286 (344)
                      +-..+...|++++|...|+...+..-. +.   ..|..+-.+|.+.|++++|...|++.....  |+    ...+..+-.
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la~   84 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHHH
Confidence            445677899999999999999875321 22   477788889999999999999999988753  33    566777888


Q ss_pred             HHHHcCCHHHHHHHHHHHHHC
Q 047934          287 GLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       287 a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      ++...|+.++|.+.++.+.+.
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            899999999999999998875

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.09  E-value=0.0089  Score=51.28  Aligned_cols=110  Identities=11%  Similarity=0.096  Sum_probs=87.2

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHH----------------HHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 047934          180 LDGLCKDGLIQEAMKLFGLMREKGTIP-EVVIYTA----------------VVDGFCKAQKFDDAKRIFRKMQSNGIAPN  242 (344)
Q Consensus       180 i~~~~k~g~~~~A~~lf~~M~~~g~~p-d~~tyn~----------------LI~ay~k~g~~e~A~~vf~~M~~~gi~pd  242 (344)
                      -..+...|++++|...|+...+..  | +...|..                +-.+|.+.|++++|...|++..+.. +-+
T Consensus        11 g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~   87 (208)
T 3urz_A           11 VSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PNN   87 (208)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCC
Confidence            345678999999999999887652  2 3445555                8888999999999999999998763 226


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 047934          243 AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERG  293 (344)
Q Consensus       243 ~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~  293 (344)
                      ...|..+-.+|...|++++|+..|++..+.. +-+..+|..+-..|...|.
T Consensus        88 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           88 VDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhH
Confidence            7899999999999999999999999998753 2256777777777765553

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=97.06  E-value=0.0096  Score=47.02  Aligned_cols=101  Identities=15%  Similarity=0.137  Sum_probs=78.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCC----HHHHHHHHHH
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNG--IAPN----AFSYNLLIQG  252 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~g--i~pd----~~tyn~LI~a  252 (344)
                      +=..|.+.|++++|++.|....+.. +-+..+|+.+-.+|.+.|++++|+..|++..+..  ...+    ..+|..+-.+
T Consensus        14 lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~   92 (127)
T 4gcn_A           14 LGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAGNA   92 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHHHH
Confidence            4456788999999999999887753 3468889999999999999999999999876531  1112    2467777788


Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 047934          253 LYKCNKLEEAVEYCIEMLEAGHSPNVTTFV  282 (344)
Q Consensus       253 y~k~g~~~~A~~lf~~M~~~gv~pd~~ty~  282 (344)
                      |...|++++|++.|++....  .||..+..
T Consensus        93 ~~~~~~~~~A~~~~~kal~~--~~~~~~~~  120 (127)
T 4gcn_A           93 FQKQNDLSLAVQWFHRSLSE--FRDPELVK  120 (127)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--SCCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhh--CcCHHHHH
Confidence            88999999999999987764  45655443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.03  E-value=0.0037  Score=62.01  Aligned_cols=127  Identities=13%  Similarity=0.092  Sum_probs=95.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHc---CCCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----CC-CCC-HHHH
Q 047934          181 DGLCKDGLIQEAMKLFGLMREK---GTIP----EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSN-----GI-APN-AFSY  246 (344)
Q Consensus       181 ~~~~k~g~~~~A~~lf~~M~~~---g~~p----d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~-----gi-~pd-~~ty  246 (344)
                      ..+-..|++++|+.++++..+.   -+.+    ...+++.|..+|...|++++|+.++++..+-     |- -|+ ..++
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            3455789999999999876543   1222    3578899999999999999999999887542     21 233 4678


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH-----cCC-CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          247 NLLIQGLYKCNKLEEAVEYCIEMLE-----AGH-SPN-VTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       247 n~LI~ay~k~g~~~~A~~lf~~M~~-----~gv-~pd-~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +.|-..|...|++++|+.++++..+     .|- .|+ ..+...+-.++...+.+++|+.++..+++.
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999998654     232 233 333455666667889999999999998764

>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=97.03  E-value=0.0044  Score=60.92  Aligned_cols=119  Identities=10%  Similarity=-0.105  Sum_probs=58.1

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          148 NRNEPISEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFD  225 (344)
Q Consensus       148 ~~~~~~sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e  225 (344)
                      ...++..|++++|++.|++..+..-.  ..+..+-.+|.+.|++++|++.|+...+.. +-+..+|..+-.+|...|+++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            34455567777777777766554211  011234555556666666666666655542 224555555566666666666


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHH--HHHcCCHHHHHHHHHH
Q 047934          226 DAKRIFRKMQSNGIAPNAFSYNLLIQG--LYKCNKLEEAVEYCIE  268 (344)
Q Consensus       226 ~A~~vf~~M~~~gi~pd~~tyn~LI~a--y~k~g~~~~A~~lf~~  268 (344)
                      +|++.|++..+..-. +...+..+-.+  +.+.|++++|++++++
T Consensus        92 eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           92 AALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            666666655543111 12223323222  5555555555555443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=97.02  E-value=0.014  Score=50.52  Aligned_cols=149  Identities=9%  Similarity=0.065  Sum_probs=103.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCC-C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCH-HHHHHHHHHHH
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTI-P-EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIA-PNA-FSYNLLIQGLY  254 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~-p-d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~-pd~-~tyn~LI~ay~  254 (344)
                      +-..+.+.|++++|...|+.+.+..-. + ....+..+..+|.+.|++++|...|+++.+..-. +.. ..|-.+-.+|.
T Consensus        10 ~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~   89 (225)
T 2yhc_A           10 TAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNM   89 (225)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHH
Confidence            456688899999999999999875321 2 2467788889999999999999999999875322 221 23333333443


Q ss_pred             H------------------cCCHHHHHHHHHHHHHcCCCCCHH-HH-----------------HHHHHHHHHcCCHHHHH
Q 047934          255 K------------------CNKLEEAVEYCIEMLEAGHSPNVT-TF-----------------VGLVDGLCRERGVEKAQ  298 (344)
Q Consensus       255 k------------------~g~~~~A~~lf~~M~~~gv~pd~~-ty-----------------~~lL~a~~~~G~~e~a~  298 (344)
                      +                  .|+.++|...|+++.+.  .|+.. .+                 ..+-..|.+.|++++|.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~  167 (225)
T 2yhc_A           90 ALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVV  167 (225)
T ss_dssp             HHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             hhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHH
Confidence            3                  57899999999998875  23321 11                 23445677899999999


Q ss_pred             HHHHHHHHCC--CcccHHHHHHHHhccCCCChH
Q 047934          299 SVIATLKEKG--FLVNDKAVREFLDKKAPFSSS  329 (344)
Q Consensus       299 ~l~~~M~~~G--i~p~~~~~~~Ll~~yak~g~~  329 (344)
                      ..++.+.+.-  -......+..+-..|.+.|..
T Consensus       168 ~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~  200 (225)
T 2yhc_A          168 NRVEGMLRDYPDTQATRDALPLMENAYRQMQMN  200 (225)
T ss_dssp             HHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCc
Confidence            9999988752  111234566677777777763

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=96.99  E-value=0.011  Score=46.30  Aligned_cols=94  Identities=10%  Similarity=-0.028  Sum_probs=78.2

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 047934          212 TAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRE  291 (344)
Q Consensus       212 n~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~  291 (344)
                      -.+-..+.+.|++++|...|+...+.. .-+...|..+-.+|.+.|++++|+..|++..+.. .-+...+..+-.++...
T Consensus        21 ~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           21 MEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            345567789999999999999998753 2268889999999999999999999999988763 22577888888999999


Q ss_pred             CCHHHHHHHHHHHHHC
Q 047934          292 RGVEKAQSVIATLKEK  307 (344)
Q Consensus       292 G~~e~a~~l~~~M~~~  307 (344)
                      |++++|...++...+.
T Consensus        99 g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           99 HNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999988753

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=96.92  E-value=0.012  Score=47.39  Aligned_cols=110  Identities=12%  Similarity=-0.017  Sum_probs=58.6

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHHH
Q 047934          156 PPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCK----AQKFDDAKRIF  231 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k----~g~~e~A~~vf  231 (344)
                      ++++|++.|++..+.|.. ... |=..|...+.+++|+++|+...+.|   +...+..|=.+|..    .++.++|...|
T Consensus        10 d~~~A~~~~~~aa~~g~~-~a~-lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~   84 (138)
T 1klx_A           10 DLKKAIQYYVKACELNEM-FGC-LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYY   84 (138)
T ss_dssp             HHHHHHHHHHHHHHTTCT-THH-HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHcCCCH-hhh-HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHH
Confidence            456666666666665533 222 3333333445555666666555543   44555555555555    55566666666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHcC
Q 047934          232 RKMQSNGIAPNAFSYNLLIQGLYK----CNKLEEAVEYCIEMLEAG  273 (344)
Q Consensus       232 ~~M~~~gi~pd~~tyn~LI~ay~k----~g~~~~A~~lf~~M~~~g  273 (344)
                      ++..+.|   +...+..|-..|..    .++.++|.+.|++-.+.|
T Consensus        85 ~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           85 SKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            6555544   44555555555555    455555555555555544

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=96.88  E-value=0.039  Score=44.27  Aligned_cols=113  Identities=9%  Similarity=-0.080  Sum_probs=95.6

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHH
Q 047934          187 GLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK----CNKLEEA  262 (344)
Q Consensus       187 g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k----~g~~~~A  262 (344)
                      ++.++|++.|+...+.|. ++..    |=.+|...+.+++|.+.|++..+.|   +...+..|=..|..    .++.++|
T Consensus         9 ~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            467899999999988873 3333    5566667778999999999998886   78888888888988    8999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCc
Q 047934          263 VEYCIEMLEAGHSPNVTTFVGLVDGLCR----ERGVEKAQSVIATLKEKGFL  310 (344)
Q Consensus       263 ~~lf~~M~~~gv~pd~~ty~~lL~a~~~----~G~~e~a~~l~~~M~~~Gi~  310 (344)
                      ++.|++-.+.|   +...+..|-..|..    .++.++|.+.+....+.|..
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~  129 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  129 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCCH
Confidence            99999999886   67788888888888    89999999999999988765

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=96.79  E-value=0.0086  Score=47.13  Aligned_cols=120  Identities=9%  Similarity=-0.035  Sum_probs=87.8

Q ss_pred             CCCCCHHHHHHHHHHHHHCCC-CCC-------HHHHHHHHHHcCCHHHHHHHHHHHHHcC----CCC-CHHHHHHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGL-IPN-------AVAMLDGLCKDGLIQEAMKLFGLMREKG----TIP-EVVIYTAVVDGF  218 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi-~p~-------~~tli~~~~k~g~~~~A~~lf~~M~~~g----~~p-d~~tyn~LI~ay  218 (344)
                      ...|++++|.+.|++..+..- ..+       +..+-..|...|++++|.++|+...+..    -.+ ...++..+-..|
T Consensus        20 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~   99 (164)
T 3ro3_A           20 YLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTY   99 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            446889999999988765311 111       2246778889999999999999876431    111 145778888899


Q ss_pred             HHcCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          219 CKAQKFDDAKRIFRKMQSN----GIA-PNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       219 ~k~g~~e~A~~vf~~M~~~----gi~-pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      ...|++++|...+++..+.    +.. ....++..+-..|...|++++|.+.+++..+
T Consensus       100 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          100 TLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            9999999999999887542    211 1145677888899999999999999988664

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=96.76  E-value=0.031  Score=50.43  Aligned_cols=93  Identities=16%  Similarity=0.050  Sum_probs=77.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      .+-..+.+.|++++|...|....+.. +-+...|..+-.+|.+.|++++|...++...+.. .-+...|..+-.+|...|
T Consensus         9 ~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g   86 (281)
T 2c2l_A            9 EQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEME   86 (281)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            35677888999999999999887753 2378889999999999999999999999887652 235778888999999999


Q ss_pred             CHHHHHHHHHHHHHc
Q 047934          258 KLEEAVEYCIEMLEA  272 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~  272 (344)
                      ++++|...|++..+.
T Consensus        87 ~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           87 SYDEAIANLQRAYSL  101 (281)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999987764

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=96.70  E-value=0.0091  Score=58.65  Aligned_cols=119  Identities=10%  Similarity=0.063  Sum_probs=91.5

Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          182 GLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEE  261 (344)
Q Consensus       182 ~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~  261 (344)
                      .|.+.|++++|.+.|++..+.. +-+..+|..+-.+|.+.|++++|...|++..+.. .-+...|..+-.+|.+.|++++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            4557899999999999888762 3368999999999999999999999999998863 2367889999999999999999


Q ss_pred             HHHHHHHHHHcC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047934          262 AVEYCIEMLEAG-HSPNVTTFVGLVDGLCRERGVEKAQSVIA  302 (344)
Q Consensus       262 A~~lf~~M~~~g-v~pd~~ty~~lL~a~~~~G~~e~a~~l~~  302 (344)
                      |++.|++..+.. -.++.......+..+.+.|++++|.++++
T Consensus        93 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           93 ALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999988753 12333333333444788899999999888

>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=96.67  E-value=0.028  Score=52.29  Aligned_cols=119  Identities=17%  Similarity=0.047  Sum_probs=93.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN--------------AFSYNLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd--------------~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      +...+..+-..|.+.|++++|...|++..+..-...              ...|..+-.+|.+.|++++|+..|++..+.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456777888889999999999999999887532221              589999999999999999999999998876


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCC
Q 047934          273 GHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFS  327 (344)
Q Consensus       273 gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g  327 (344)
                      . .-+...|..+-.+|...|++++|...|+...+..= -+...+..+-..+.+.|
T Consensus       226 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~  278 (336)
T 1p5q_A          226 D-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQRIR  278 (336)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHH
Confidence            3 33688899999999999999999999999887531 13344555544444433

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=96.66  E-value=0.02  Score=59.06  Aligned_cols=172  Identities=12%  Similarity=0.063  Sum_probs=119.6

Q ss_pred             CCCHHHHH-HHHHHHHHCCCCCC---HHHHHHHHHHcCCHHHHHHHHHHHHHcC---------CCCC------------H
Q 047934          154 SEPPQEAD-EIFKKMKETGLIPN---AVAMLDGLCKDGLIQEAMKLFGLMREKG---------TIPE------------V  208 (344)
Q Consensus       154 sg~~~~A~-~lf~~M~~~gi~p~---~~tli~~~~k~g~~~~A~~lf~~M~~~g---------~~pd------------~  208 (344)
                      .|+.++|. ++|++.... +..+   |..++...-+.|++++|.++|+.+.+..         -.|+            .
T Consensus       356 ~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~  434 (679)
T 4e6h_A          356 KNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLT  434 (679)
T ss_dssp             HSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchH
Confidence            46677886 999887752 2222   2245667778899999999999887641         0132            3


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHC-C-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047934          209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSN-G-IAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVD  286 (344)
Q Consensus       209 ~tyn~LI~ay~k~g~~e~A~~vf~~M~~~-g-i~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~  286 (344)
                      .+|...+....+.|.++.|+.+|....+. + ..+.+....+.+.-.+ .++.+.|.++|+...+. ..-+...+...+.
T Consensus       435 ~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~-~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~  512 (679)
T 4e6h_A          435 YVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHI-SKDTKTACKVLELGLKY-FATDGEYINKYLD  512 (679)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHHHH-HTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH-CCCchHHHHHHHH
Confidence            46888888888899999999999999876 2 2233444444444222 34589999999998876 3335666678888


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCcc--cHHHHHHHHhccCCCCh
Q 047934          287 GLCRERGVEKAQSVIATLKEKGFLV--NDKAVREFLDKKAPFSS  328 (344)
Q Consensus       287 a~~~~G~~e~a~~l~~~M~~~Gi~p--~~~~~~~Ll~~yak~g~  328 (344)
                      .....|+.+.|+.+|+......-.+  ....|..+++.-.+.|.
T Consensus       513 fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~  556 (679)
T 4e6h_A          513 FLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGS  556 (679)
T ss_dssp             HHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCC
T ss_pred             HHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC
Confidence            8888999999999999988765422  34566666665445553

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=96.66  E-value=0.028  Score=53.21  Aligned_cols=121  Identities=9%  Similarity=-0.029  Sum_probs=89.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc---------------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 047934          176 AVAMLDGLCKDGLIQEAMKLFGLMREK---------------GTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIA  240 (344)
Q Consensus       176 ~~tli~~~~k~g~~~~A~~lf~~M~~~---------------g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~  240 (344)
                      +..+-..|.+.|++++|++.|+...+.               --+-+..+|..+-.+|.+.|++++|+..+++..+.. .
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  304 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  304 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-c
Confidence            334667788999999999999987651               111245778888888899999999999999888753 2


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          241 PNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQ  298 (344)
Q Consensus       241 pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~  298 (344)
                      -+...|..+-.+|.+.|++++|++.|++..+.. .-+...+..+-..+...++.+++.
T Consensus       305 ~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          305 SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            257788888889999999999999999887652 124556666666666666665554

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=96.65  E-value=0.033  Score=54.15  Aligned_cols=127  Identities=13%  Similarity=0.088  Sum_probs=97.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCC--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPE--------------VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNA  243 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd--------------~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~  243 (344)
                      .+-..|.+.|++++|...|....+..-...              ..+|..+-.+|.+.|++++|+..|++..+.. .-+.
T Consensus       273 ~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~  351 (457)
T 1kt0_A          273 EKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANE  351 (457)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccH
Confidence            456778899999999999998876421111              6889999999999999999999999998753 2367


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHH-HHHHHHHHC
Q 047934          244 FSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP-NVTTFVGLVDGLCRERGVEKAQ-SVIATLKEK  307 (344)
Q Consensus       244 ~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~p-d~~ty~~lL~a~~~~G~~e~a~-~l~~~M~~~  307 (344)
                      ..|..+-.+|...|++++|+..|++..+.  .| +...+..+-.++.+.++.+++. .++..|...
T Consensus       352 ~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f~k  415 (457)
T 1kt0_A          352 KGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQKKAKEHNERDRRIYANMFKK  415 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            88999999999999999999999998765  33 4556777778888888887765 455555443

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=96.59  E-value=0.012  Score=60.53  Aligned_cols=141  Identities=8%  Similarity=-0.069  Sum_probs=110.6

Q ss_pred             HHcCCHHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 047934          184 CKDGLIQEAMKLFGLMRE-------KGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC  256 (344)
Q Consensus       184 ~k~g~~~~A~~lf~~M~~-------~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~  256 (344)
                      ...|++++|++.|+...+       ...+.+...+..+-.+|...|++++|...|++..+.. .-+...|..+-.+|.+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            788999999999999871       1224467888889999999999999999999998752 22678899999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCCh
Q 047934          257 NKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSS  328 (344)
Q Consensus       257 g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~  328 (344)
                      |++++|++.|++..+.. .-+...|..+-.+|...|++++ .+.++...+..=. +...+..+-..|.+.|.
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~  549 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGD  549 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCC
Confidence            99999999999988753 2256778888889999999999 9999988875322 34455555555555554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=96.57  E-value=0.024  Score=52.11  Aligned_cols=117  Identities=9%  Similarity=-0.110  Sum_probs=89.2

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHcCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHcCCHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNA---VAMLDGLCKDGLIQEAMKLFGLMREKGTIP--EVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~---~tli~~~~k~g~~~~A~~lf~~M~~~g~~p--d~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      .|++++|.++|+.+...+  |..   ..+-..|.+.+++++|+..|....... .|  ....+..|=.++...|++++|+
T Consensus       115 ~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~LG~~~eAl  191 (282)
T 4f3v_A          115 QGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANLALFTEAE  191 (282)
T ss_dssp             HTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHCCCHHHHH
Confidence            678999999999887644  433   245567889999999999998443321 11  1236777788899999999999


Q ss_pred             HHHHHHHHCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Q 047934          229 RIFRKMQSNGIAPN--AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG  273 (344)
Q Consensus       229 ~vf~~M~~~gi~pd--~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g  273 (344)
                      ..|++.......|.  ...+..+-.++.+.|+.++|..+|+++....
T Consensus       192 ~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          192 RRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            99999875444354  3466677778889999999999999998863

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=96.54  E-value=0.034  Score=45.10  Aligned_cols=92  Identities=13%  Similarity=0.090  Sum_probs=44.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc-------CC----------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREK-------GT----------IPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAP  241 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~-------g~----------~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~p  241 (344)
                      .=..+.+.|++++|+..|....+.       .-          +-+..+|..+-.+|.+.|++++|...++...+.. .-
T Consensus        17 ~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~   95 (162)
T 3rkv_A           17 KGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ET   95 (162)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-Cc
Confidence            445566667777777777665442       00          0112344444444555555555555555444431 11


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          242 NAFSYNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       242 d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      +...|..+-.+|...|++++|...|++...
T Consensus        96 ~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           96 NEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            344444444455555555555555544443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=96.53  E-value=0.081  Score=42.80  Aligned_cols=89  Identities=16%  Similarity=0.159  Sum_probs=58.4

Q ss_pred             HHHcCCHHHHHHHHHHHHHC-------C----------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH
Q 047934          218 FCKAQKFDDAKRIFRKMQSN-------G----------IAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTT  280 (344)
Q Consensus       218 y~k~g~~e~A~~vf~~M~~~-------g----------i~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~t  280 (344)
                      +.+.|++++|...|......       .          -.-+...|..+-.+|.+.|++++|+..+++..... .-+...
T Consensus        21 ~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a   99 (162)
T 3rkv_A           21 LFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKA   99 (162)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHH
Confidence            34667777777777665442       0          01123567777777777777777777777776642 224666


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          281 FVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       281 y~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      |..+-.+|...|++++|...+....+.
T Consensus       100 ~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A          100 LFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            777777777777777777777776654

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=96.45  E-value=0.055  Score=48.75  Aligned_cols=86  Identities=10%  Similarity=-0.077  Sum_probs=68.8

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCC-CC-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLI-PN-AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~-p~-~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      ++..|++++|+..|++..+..-. +. +..+-..|.+.|++++|.+.++...+.. +-+...+..+-.+|...|++++|.
T Consensus        14 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~   92 (281)
T 2c2l_A           14 LFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEMESYDEAI   92 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            44578999999999998875321 11 2346778889999999999999887652 346788999999999999999999


Q ss_pred             HHHHHHHHC
Q 047934          229 RIFRKMQSN  237 (344)
Q Consensus       229 ~vf~~M~~~  237 (344)
                      ..|+...+.
T Consensus        93 ~~~~~al~l  101 (281)
T 2c2l_A           93 ANLQRAYSL  101 (281)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999988664

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=96.39  E-value=0.069  Score=50.72  Aligned_cols=152  Identities=11%  Similarity=0.002  Sum_probs=95.7

Q ss_pred             CCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc----------
Q 047934          154 SEPPQEADEIFKKMKETGLIP--NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKA----------  221 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~----------  221 (344)
                      .+++++|.+++++.....-..  .+..+-..|...|++++|.+.|+...+.. +-+..++..+-..|...          
T Consensus       226 ~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~  304 (472)
T 4g1t_A          226 GEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMNLREN  304 (472)
T ss_dssp             ----CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             hhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            567888888888776643221  12346778888899999999998877653 22455665555444321          


Q ss_pred             ---------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHH--HHHHHHH-HHH
Q 047934          222 ---------QKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVT--TFVGLVD-GLC  289 (344)
Q Consensus       222 ---------g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~--ty~~lL~-a~~  289 (344)
                               +..++|...|+...+.. ..+..+|..+-..|...|++++|++.|++.......+...  .+..+.. ...
T Consensus       305 ~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~  383 (472)
T 4g1t_A          305 GMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLY  383 (472)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHH
Confidence                     23456777777665542 2244567788888999999999999999888764333221  1111111 234


Q ss_pred             HcCCHHHHHHHHHHHHHC
Q 047934          290 RERGVEKAQSVIATLKEK  307 (344)
Q Consensus       290 ~~G~~e~a~~l~~~M~~~  307 (344)
                      ..|+.++|.+.+.+..+.
T Consensus       384 ~~~~~~~Ai~~y~kal~i  401 (472)
T 4g1t_A          384 QMKCEDKAIHHFIEGVKI  401 (472)
T ss_dssp             TSSCHHHHHHHHHHHHHS
T ss_pred             HCCCHHHHHHHHHHHHhc
Confidence            578899999988887764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=96.31  E-value=0.14  Score=49.43  Aligned_cols=80  Identities=14%  Similarity=0.033  Sum_probs=34.7

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC-----CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----c
Q 047934          186 DGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQ-----KFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK----C  256 (344)
Q Consensus       186 ~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g-----~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k----~  256 (344)
                      .++.++|+++|+...+.|   +...+..|=.+|. .|     ++++|...|++.. .|   +...+..|-..|..    .
T Consensus       264 ~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~  335 (452)
T 3e4b_A          264 LGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGK  335 (452)
T ss_dssp             GCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSS
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCC
Confidence            445555555555444443   3344444444443 22     4455555554433 21   33344443333333    1


Q ss_pred             CCHHHHHHHHHHHHHcC
Q 047934          257 NKLEEAVEYCIEMLEAG  273 (344)
Q Consensus       257 g~~~~A~~lf~~M~~~g  273 (344)
                      .+.++|.+.|++-.+.|
T Consensus       336 ~d~~~A~~~~~~Aa~~g  352 (452)
T 3e4b_A          336 VYPQKALDHLLTAARNG  352 (452)
T ss_dssp             CCHHHHHHHHHHHHTTT
T ss_pred             cCHHHHHHHHHHHHhhC
Confidence            24555555555544443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=96.29  E-value=0.019  Score=56.94  Aligned_cols=122  Identities=11%  Similarity=-0.059  Sum_probs=90.5

Q ss_pred             CCCCCCHHHHHHHHHHHHHCC---CCC---CH----HHHHHHHHHcCCHHHHHHHHHHHHHc---CCCC----CHHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETG---LIP---NA----VAMLDGLCKDGLIQEAMKLFGLMREK---GTIP----EVVIYTA  213 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~g---i~p---~~----~tli~~~~k~g~~~~A~~lf~~M~~~---g~~p----d~~tyn~  213 (344)
                      +...|++++|+.++++..+..   +-+   +.    +.|...|...|++++|..++++..+-   -+.+    ...+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            345789999999998766531   222   22    24788899999999999999876532   1222    3578899


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHH-----CCCC-CC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          214 VVDGFCKAQKFDDAKRIFRKMQS-----NGIA-PN-AFSYNLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       214 LI~ay~k~g~~e~A~~vf~~M~~-----~gi~-pd-~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      |-..|...|++++|+.++++..+     .|-. |+ ..+.+.|-.++...+.+++|..++.++++.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999988654     2322 22 345667778888899999999999998763

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=96.29  E-value=0.18  Score=48.68  Aligned_cols=143  Identities=12%  Similarity=0.008  Sum_probs=98.3

Q ss_pred             CHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHc----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-H--HHcCCHHH
Q 047934          156 PPQEADEIFKKMKETGLIPNA--VAMLDGLCKD----GLIQEAMKLFGLMREKGTIPEVVIYTAVVDG-F--CKAQKFDD  226 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p~~--~tli~~~~k~----g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~a-y--~k~g~~e~  226 (344)
                      +.++|++.|+...+.|-....  ..|-..|...    ++.++|+++|+... .|   +...+..|-.+ |  ...++.++
T Consensus       194 ~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~  269 (452)
T 3e4b_A          194 QQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQ  269 (452)
T ss_dssp             HHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHH
Confidence            788888888888887755322  2233333222    58888888888776 33   45555555555 3  45788999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC-----CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHH
Q 047934          227 AKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN-----KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCR----ERGVEKA  297 (344)
Q Consensus       227 A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g-----~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~----~G~~e~a  297 (344)
                      |...|++..+.|   +...+..|-..|. .|     +.++|++.|++.. .|   +...+..|-..|..    ..+.++|
T Consensus       270 A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A  341 (452)
T 3e4b_A          270 MMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKA  341 (452)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHH
Confidence            999999888876   6777777777776 45     8889998888766 33   55666656555554    3388888


Q ss_pred             HHHHHHHHHCCCc
Q 047934          298 QSVIATLKEKGFL  310 (344)
Q Consensus       298 ~~l~~~M~~~Gi~  310 (344)
                      .+.+....+.|..
T Consensus       342 ~~~~~~Aa~~g~~  354 (452)
T 3e4b_A          342 LDHLLTAARNGQN  354 (452)
T ss_dssp             HHHHHHHHTTTCT
T ss_pred             HHHHHHHHhhChH
Confidence            8888887776543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=96.03  E-value=0.14  Score=47.42  Aligned_cols=150  Identities=10%  Similarity=0.071  Sum_probs=112.8

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHH---HHHHHHHcCCHH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC------
Q 047934          155 EPPQEADEIFKKMKETGLIPNAVA---MLDGLCKDGLIQ--EAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQK------  223 (344)
Q Consensus       155 g~~~~A~~lf~~M~~~gi~p~~~t---li~~~~k~g~~~--~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~------  223 (344)
                      +++++++++++.+.+.+-+ +..+   ---.+.+.|.++  +++++++.|.+.... |-..|+---..+...+.      
T Consensus       124 ~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhh
Confidence            5689999999999987654 4432   233344567777  999999999987653 77888776666666666      


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH-HHHHHHHHHHcC--CCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          224 FDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEE-AVEYCIEMLEAG--HSPNVTTFVGLVDGLCRERGVEKAQSV  300 (344)
Q Consensus       224 ~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~-A~~lf~~M~~~g--v~pd~~ty~~lL~a~~~~G~~e~a~~l  300 (344)
                      ++++++.++.+...... |...|+.+-..+.+.|...+ +.+++.+....+  -..+...+..+...|.+.|+.++|.++
T Consensus       202 ~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          202 IDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence            88999999888876433 88899988888888887544 455666555432  134778889999999999999999999


Q ss_pred             HHHHHHC
Q 047934          301 IATLKEK  307 (344)
Q Consensus       301 ~~~M~~~  307 (344)
                      ++.+.+.
T Consensus       281 ~~~l~~~  287 (306)
T 3dra_A          281 YDLLKSK  287 (306)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhc
Confidence            9998763

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=95.97  E-value=0.072  Score=40.38  Aligned_cols=79  Identities=13%  Similarity=0.114  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          191 EAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEML  270 (344)
Q Consensus       191 ~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~  270 (344)
                      +|++.|+...+.. +-+...+..+-..|...|++++|...|++..+.. .-+...|..+-.+|.+.|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4566676665542 3366777778888888888888888888877653 2246677777888888888888888887765


Q ss_pred             H
Q 047934          271 E  271 (344)
Q Consensus       271 ~  271 (344)
                      +
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=95.93  E-value=0.034  Score=41.28  Aligned_cols=65  Identities=14%  Similarity=0.219  Sum_probs=46.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      +...+..+-..+...|++++|...|++..+.. ..+...|..+-.+|.+.|++++|++.|++..+.
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            34556666777777788888888887776642 225667777777888888888888888777654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=95.92  E-value=0.085  Score=50.08  Aligned_cols=123  Identities=15%  Similarity=-0.036  Sum_probs=72.1

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc----------
Q 047934          187 GLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC----------  256 (344)
Q Consensus       187 g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~----------  256 (344)
                      ++.++|.++++...... +.+..++..+-..|...|++++|...|++..+.. +-+..+|..+-.+|...          
T Consensus       227 ~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~  304 (472)
T 4g1t_A          227 EEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMNLREN  304 (472)
T ss_dssp             ---CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             hHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            45556666666555432 2355666667777777777777777777665542 11344454444443221          


Q ss_pred             ---------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCccc
Q 047934          257 ---------NKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVN  312 (344)
Q Consensus       257 ---------g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~  312 (344)
                               +..+.|...|++..+.. ..+..++..+-..|...|++++|.+.|+...+....+.
T Consensus       305 ~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~  368 (472)
T 4g1t_A          305 GMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPV  368 (472)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCCh
Confidence                     12345555555554432 12334566677888899999999999999988765543

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=95.91  E-value=0.15  Score=36.16  Aligned_cols=63  Identities=24%  Similarity=0.346  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       209 ~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      ..+..+-..|...|++++|...|++..+.. .-+...|..+-.+|.+.|++++|.+.|++..+.
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            445555566666666777776666665532 124556666666666777777777776666554

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=95.87  E-value=0.12  Score=39.14  Aligned_cols=62  Identities=10%  Similarity=-0.043  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          243 AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       243 ~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      ...|..+-..|...|++++|++.|++..... .-+...|..+-.+|...|+.++|...++...
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444444444444444444444444444321 1123344444444444444444444444443

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=95.86  E-value=0.41  Score=39.94  Aligned_cols=61  Identities=11%  Similarity=-0.024  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHc-----CCCCC-HHHH----HHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          245 SYNLLIQGLYKCNKLEEAVEYCIEMLEA-----GHSPN-VTTF----VGLVDGLCRERGVEKAQSVIATLK  305 (344)
Q Consensus       245 tyn~LI~ay~k~g~~~~A~~lf~~M~~~-----gv~pd-~~ty----~~lL~a~~~~G~~e~a~~l~~~M~  305 (344)
                      .|+.+-.++.+.|++++|+..+++..+.     .+.|+ ...|    ...-.++...|++++|.+.|+...
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence            5666666666666666666666655542     22343 3344    455555666666666666666554

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=95.76  E-value=0.14  Score=48.45  Aligned_cols=98  Identities=16%  Similarity=0.168  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHC--------------CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Q 047934          209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSN--------------GIA-PNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG  273 (344)
Q Consensus       209 ~tyn~LI~ay~k~g~~e~A~~vf~~M~~~--------------gi~-pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g  273 (344)
                      ..+..+-..|.+.|++++|...|++..+.              ... -+...|..+-.+|.+.|++++|++.+++..+..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            34566677888999999999999988751              011 245788899999999999999999999988753


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          274 HSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       274 v~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                       .-+...|..+-.+|...|++++|.+.++...+.
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence             235788888999999999999999999998875

>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=95.75  E-value=0.13  Score=49.93  Aligned_cols=100  Identities=18%  Similarity=0.085  Sum_probs=84.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN--------------AFSYNLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd--------------~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      ....|..+-..|.+.|++++|...|++..+..-.-.              ...|..+-.+|.+.|++++|+..|++..+.
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            345677788889999999999999999877421111              588999999999999999999999998876


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          273 GHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       273 gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      . .-+...|..+-.+|...|++++|...|....+.
T Consensus       347 ~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l  380 (457)
T 1kt0_A          347 D-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  380 (457)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             C-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            3 236888889999999999999999999998875

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=95.59  E-value=0.15  Score=42.63  Aligned_cols=107  Identities=14%  Similarity=0.112  Sum_probs=80.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCC-C-----CH-----HHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----CCCCC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTI-P-----EV-----VIYTAVVDGFCKAQKFDDAKRIFRKMQSN-----GIAPN  242 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~-p-----d~-----~tyn~LI~ay~k~g~~e~A~~vf~~M~~~-----gi~pd  242 (344)
                      .-..+.+.|++++|++.|+...+..-. |     +.     ..|..+-.++.+.|++++|+..|++..+.     .+.|+
T Consensus        17 ~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd   96 (159)
T 2hr2_A           17 DAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQD   96 (159)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTST
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCc
Confidence            445677889999999999987754211 0     23     38999999999999999999999998773     22555


Q ss_pred             -HHHH----HHHHHHHHHcCCHHHHHHHHHHHHH-----cCCCCCHHHHHHHH
Q 047934          243 -AFSY----NLLIQGLYKCNKLEEAVEYCIEMLE-----AGHSPNVTTFVGLV  285 (344)
Q Consensus       243 -~~ty----n~LI~ay~k~g~~~~A~~lf~~M~~-----~gv~pd~~ty~~lL  285 (344)
                       ...|    ...=.++...|++++|+..|++..+     .|+.+......-.+
T Consensus        97 ~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~~  149 (159)
T 2hr2_A           97 EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVA  149 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHH
T ss_pred             hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHH
Confidence             4577    8888899999999999999998765     35655554444333

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=95.56  E-value=0.024  Score=52.82  Aligned_cols=123  Identities=11%  Similarity=0.045  Sum_probs=61.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCH------------------HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEV------------------VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIA  240 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~------------------~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~  240 (344)
                      +-..+.+.|++++|...|....+.  .|+.                  .+|..+-.+|.+.|++++|...|+...+.. .
T Consensus       185 ~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  261 (338)
T 2if4_A          185 DGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTEE-E  261 (338)
T ss_dssp             HHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            444555667777777777765543  1332                  266777777778888888888887776642 2


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHH-HHcCCHHHHHHHHHHHHH
Q 047934          241 PNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNV-TTFVGLVDGL-CRERGVEKAQSVIATLKE  306 (344)
Q Consensus       241 pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~-~ty~~lL~a~-~~~G~~e~a~~l~~~M~~  306 (344)
                      -+...|..+-.+|...|++++|...|++..+.  .|+. ..+..+.... ...+..+++..++..|..
T Consensus       262 ~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~  327 (338)
T 2if4_A          262 KNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALYQKQKEMYKGIFK  327 (338)
T ss_dssp             TCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------------------
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            25667777777888888888888887776543  3332 2222222221 223455566666666543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.48  E-value=0.27  Score=45.96  Aligned_cols=157  Identities=8%  Similarity=-0.018  Sum_probs=108.4

Q ss_pred             CCCCCCCHHHHHHHHHHHHHC-CCCCCHH------HHHHHH-HHcCCHHHHHHHHHHHHH----cCCCC-CHHHHHHHHH
Q 047934          150 NEPISEPPQEADEIFKKMKET-GLIPNAV------AMLDGL-CKDGLIQEAMKLFGLMRE----KGTIP-EVVIYTAVVD  216 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~-gi~p~~~------tli~~~-~k~g~~~~A~~lf~~M~~----~g~~p-d~~tyn~LI~  216 (344)
                      .+...|++++|.+++..+... +-.+...      .++..+ ...|..++|.+++.....    .+..+ -..++..|..
T Consensus        64 ~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~  143 (434)
T 4b4t_Q           64 LYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLAT  143 (434)
T ss_dssp             HHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            344578899999999987652 1122221      122222 235789999999887653    23222 3567888999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHC--CC--CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCC----HHHHHHHH
Q 047934          217 GFCKAQKFDDAKRIFRKMQSN--GI--AP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA--GHSPN----VTTFVGLV  285 (344)
Q Consensus       217 ay~k~g~~e~A~~vf~~M~~~--gi--~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~--gv~pd----~~ty~~lL  285 (344)
                      .|...|++++|..+++.+...  +.  .+ .+.+|..++..|...|++++|..++++....  .+..+    ...+..+.
T Consensus       144 ~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g  223 (434)
T 4b4t_Q          144 LHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSG  223 (434)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHH
T ss_pred             HHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHH
Confidence            999999999999999987653  11  11 2467899999999999999999999886642  12212    23455666


Q ss_pred             HHHHHcCCHHHHHHHHHHHHH
Q 047934          286 DGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       286 ~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      ..+...|++++|...+.+..+
T Consensus       224 ~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          224 ILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHHHHHHHHHHHHH
Confidence            667778999999887776653

>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=95.32  E-value=0.11  Score=50.49  Aligned_cols=91  Identities=5%  Similarity=-0.025  Sum_probs=56.2

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHc--C-CCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----C-CCCC-HHH
Q 047934          180 LDGLCKDGLIQEAMKLFGLMREK--G-TIP----EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSN-----G-IAPN-AFS  245 (344)
Q Consensus       180 i~~~~k~g~~~~A~~lf~~M~~~--g-~~p----d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~-----g-i~pd-~~t  245 (344)
                      +..+.+.|++++|+++++...+.  . +.+    ...+++.|..+|...|++++|+.++++..+-     | --|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            44555667777777777766543  1 222    2456677777777777777777777765431     2 1122 345


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          246 YNLLIQGLYKCNKLEEAVEYCIEML  270 (344)
Q Consensus       246 yn~LI~ay~k~g~~~~A~~lf~~M~  270 (344)
                      |+.|-..|...|++++|+.++++..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            6677777777777777777776644

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=95.31  E-value=0.11  Score=38.66  Aligned_cols=64  Identities=13%  Similarity=0.132  Sum_probs=44.4

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      +..++..+-.+|...|++++|...|++..+..-. +...|..+-.+|.+.|++++|.+.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4566667777777777777777777777664321 455677777777777777777777776543

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=95.12  E-value=0.42  Score=33.66  Aligned_cols=77  Identities=17%  Similarity=0.158  Sum_probs=59.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC  256 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~  256 (344)
                      .+-..+...|++++|...|+...+.. +-+..++..+-.+|.+.|++++|...|++..+.. .-+...+..+-.++.+.
T Consensus        14 ~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~   90 (91)
T 1na3_A           14 NLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQKQ   90 (91)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhc
Confidence            35667888999999999999887753 3367888899999999999999999999987753 22456666665555443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=95.11  E-value=0.023  Score=42.31  Aligned_cols=83  Identities=14%  Similarity=0.103  Sum_probs=60.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-------HHHHHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN-------AFSYNLLI  250 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd-------~~tyn~LI  250 (344)
                      .+-..+...|++++|.+.|+...+.. +.+..+|..+-.+|.+.|++++|...|++..+.  .|+       ...+..+-
T Consensus         9 ~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~   85 (111)
T 2l6j_A            9 EQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRSKLQYRLE   85 (111)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHHHHHHHHH
Confidence            45567788999999999999887753 347788899999999999999999999998875  344       33444444


Q ss_pred             HHHHHcCCHHHHH
Q 047934          251 QGLYKCNKLEEAV  263 (344)
Q Consensus       251 ~ay~k~g~~~~A~  263 (344)
                      .++...|..++|.
T Consensus        86 ~~~~~~~~~~~a~   98 (111)
T 2l6j_A           86 LAQGAVGSVQIPV   98 (111)
T ss_dssp             HHHHHHHCCCCCS
T ss_pred             HHHHHHHhHhhhH
Confidence            4444444444333

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=95.05  E-value=0.17  Score=37.65  Aligned_cols=65  Identities=22%  Similarity=0.142  Sum_probs=56.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          242 NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       242 d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +...|..+-.+|.+.|++++|++.|++..+..- -+...|..+-.+|...|++++|.+.++...+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDP-DYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            677888999999999999999999999887642 24668888999999999999999999987754

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=94.92  E-value=0.078  Score=51.58  Aligned_cols=85  Identities=12%  Similarity=-0.005  Sum_probs=50.2

Q ss_pred             cCCHHHHHHHHHHHHHc---CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----CC-CCC-HHHHHHHHH
Q 047934          186 DGLIQEAMKLFGLMREK---GTIPE----VVIYTAVVDGFCKAQKFDDAKRIFRKMQSN-----GI-APN-AFSYNLLIQ  251 (344)
Q Consensus       186 ~g~~~~A~~lf~~M~~~---g~~pd----~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~-----gi-~pd-~~tyn~LI~  251 (344)
                      .|++++|+.++++..+.   -+.|+    ..+++.|..+|...|++++|+.++++..+-     |- .|+ ..+|+.|-.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            35667777777655432   12222    356677777777777777777777665431     21 122 345666667


Q ss_pred             HHHHcCCHHHHHHHHHHHH
Q 047934          252 GLYKCNKLEEAVEYCIEML  270 (344)
Q Consensus       252 ay~k~g~~~~A~~lf~~M~  270 (344)
                      .|...|++++|+.++++..
T Consensus       391 ~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHH
Confidence            7777777777777666543

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=94.89  E-value=0.16  Score=49.28  Aligned_cols=93  Identities=11%  Similarity=0.056  Sum_probs=73.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----cC-CCCC-HH
Q 047934          214 VVDGFCKAQKFDDAKRIFRKMQSN---GIAPN----AFSYNLLIQGLYKCNKLEEAVEYCIEMLE-----AG-HSPN-VT  279 (344)
Q Consensus       214 LI~ay~k~g~~e~A~~vf~~M~~~---gi~pd----~~tyn~LI~ay~k~g~~~~A~~lf~~M~~-----~g-v~pd-~~  279 (344)
                      .+..+.+.|++++|+.++++..+.   -+.++    ..+++.|...|...|++++|+.++++..+     .| -.|+ ..
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            355567889999999999998763   12222    46899999999999999999999998764     23 2333 45


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          280 TFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       280 ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      +++.|-..|...|++++|..++.+..+
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            688899999999999999999997654

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=94.72  E-value=0.2  Score=48.71  Aligned_cols=87  Identities=9%  Similarity=0.002  Sum_probs=68.8

Q ss_pred             HcCCHHHHHHHHHHHHH---CCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----cC-CCCC-HHHHHHHH
Q 047934          220 KAQKFDDAKRIFRKMQS---NGIAPN----AFSYNLLIQGLYKCNKLEEAVEYCIEMLE-----AG-HSPN-VTTFVGLV  285 (344)
Q Consensus       220 k~g~~e~A~~vf~~M~~---~gi~pd----~~tyn~LI~ay~k~g~~~~A~~lf~~M~~-----~g-v~pd-~~ty~~lL  285 (344)
                      ..|++++|+.++++..+   .-+.++    ..+++.|..+|...|++++|+.++++..+     .| -.|+ ..+|+.|-
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            45789999999988755   222233    46899999999999999999999998764     23 2344 45688899


Q ss_pred             HHHHHcCCHHHHHHHHHHHHH
Q 047934          286 DGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       286 ~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      ..|...|++++|..++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999997654

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=94.68  E-value=0.31  Score=49.74  Aligned_cols=83  Identities=14%  Similarity=0.113  Sum_probs=41.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVD  286 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~  286 (344)
                      +...|..|-.++.+.++++.|++.|..+..         |..+...|...++.+...++-+.....|      -++....
T Consensus       680 ~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~------~~~~A~~  744 (814)
T 3mkq_A          680 AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG------KFNLAFN  744 (814)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT------CHHHHHH
T ss_pred             cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC------chHHHHH
Confidence            456666666666666666666666665542         2233333333444444443333333322      1233333


Q ss_pred             HHHHcCCHHHHHHHHHHH
Q 047934          287 GLCRERGVEKAQSVIATL  304 (344)
Q Consensus       287 a~~~~G~~e~a~~l~~~M  304 (344)
                      +|.+.|++++|.+++.++
T Consensus       745 ~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          745 AYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHTCHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHc
Confidence            445556666666665543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=94.41  E-value=0.17  Score=46.93  Aligned_cols=96  Identities=13%  Similarity=0.114  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH------------------HHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047934          209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAF------------------SYNLLIQGLYKCNKLEEAVEYCIEML  270 (344)
Q Consensus       209 ~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~------------------tyn~LI~ay~k~g~~~~A~~lf~~M~  270 (344)
                      ..+..+-..|.+.|++++|...|++....  .|+..                  .|..+-.+|.+.|++++|+..|++..
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al  257 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVL  257 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34555666777889999999999987654  34433                  78889999999999999999999988


Q ss_pred             HcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          271 EAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       271 ~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +.. .-+...|..+-.+|...|++++|.+.|....+.
T Consensus       258 ~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l  293 (338)
T 2if4_A          258 TEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY  293 (338)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            753 236788899999999999999999999987643

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.29  E-value=1.4  Score=36.18  Aligned_cols=85  Identities=16%  Similarity=0.100  Sum_probs=64.6

Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          220 KAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQS  299 (344)
Q Consensus       220 k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~  299 (344)
                      .||++..+...+-.+-.     +.......++.+...|.-|.-.++..++.. ..+|+......+-.||.+.|+..++.+
T Consensus        73 ~C~NlKrVi~C~~~~n~-----~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~e  146 (172)
T 1wy6_A           73 KCQNLKSVVECGVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATT  146 (172)
T ss_dssp             GCSCTHHHHHHHHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hhhcHHHHHHHHHHhcc-----hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHH
Confidence            45555555555543322     445567778888889999988888888543 457788888999999999999999999


Q ss_pred             HHHHHHHCCCc
Q 047934          300 VIATLKEKGFL  310 (344)
Q Consensus       300 l~~~M~~~Gi~  310 (344)
                      ++.+.-++|++
T Consensus       147 Ll~~AC~kG~k  157 (172)
T 1wy6_A          147 LLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHTTCH
T ss_pred             HHHHHHHhhhH
Confidence            99999999987

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=94.23  E-value=0.94  Score=44.43  Aligned_cols=92  Identities=11%  Similarity=0.053  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047934          209 VIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYN--LLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVD  286 (344)
Q Consensus       209 ~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn--~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~  286 (344)
                      .+|-..+..+.+.+.++.|+.+|+.. ... ..+...|.  +.+.... .++.+.|..+|+...+.- .-+...+...++
T Consensus       287 ~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~-~~~~~~~~~yid  362 (493)
T 2uy1_A          287 LLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKH-PDSTLLKEEFFL  362 (493)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            34555555555667788888888877 221 12333443  3333322 235888888888877642 112344455566


Q ss_pred             HHHHcCCHHHHHHHHHHH
Q 047934          287 GLCRERGVEKAQSVIATL  304 (344)
Q Consensus       287 a~~~~G~~e~a~~l~~~M  304 (344)
                      -..+.|+.+.|+.+|+.+
T Consensus       363 ~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          363 FLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHTCHHHHHHHHHHS
T ss_pred             HHHHcCCHHHHHHHHHHH
Confidence            666778888888888775

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=94.21  E-value=1  Score=44.16  Aligned_cols=119  Identities=10%  Similarity=0.036  Sum_probs=85.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHH--HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYT--AVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC  256 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn--~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~  256 (344)
                      .+..+.+.+..+.|..+|+.. +.. ..+..+|.  +.|.... .++.+.|+.+|+...+.- .-+...|...++...+.
T Consensus       292 y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~  367 (493)
T 2uy1_A          292 HLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRI  367 (493)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHc
Confidence            444444567899999999988 321 12444454  4444333 236999999999987752 22355677788888899


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          257 NKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       257 g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      |+.+.|..+|++..     -....|...+.-=...|+.+.+.++++.+..
T Consensus       368 ~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          368 GDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             TCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999972     2467777777777788999999998888764

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=93.90  E-value=2.9  Score=41.69  Aligned_cols=161  Identities=6%  Similarity=-0.061  Sum_probs=112.3

Q ss_pred             CHHHHHHHHHHHHHCCCCC--CHHH---HHHHHHHcC-------CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC-
Q 047934          156 PPQEADEIFKKMKETGLIP--NAVA---MLDGLCKDG-------LIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQ-  222 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p--~~~t---li~~~~k~g-------~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g-  222 (344)
                      .-++|++.++++.+.+-.-  -|+.   ++..+.+..       .+++++++++.+.+..-+ +..+|+----.+.+.+ 
T Consensus        44 ~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           44 LDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSS
T ss_pred             CCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHccc
Confidence            3567888888887754321  1221   333332211       189999999999876543 7788887777778888 


Q ss_pred             -CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc---------
Q 047934          223 -KFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN-KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRE---------  291 (344)
Q Consensus       223 -~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g-~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~---------  291 (344)
                       +++++.+.++++.+.... |...|+.--..+.+.| ..+++++.++++.+... -|...|+-.-..+.+.         
T Consensus       123 ~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p-~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC-CCccHHHHHHHHHHhhccccccccc
Confidence             779999999999987533 7888998888888888 89999999999877643 3777887766666653         


Q ss_pred             -----CCHHHHHHHHHHHHHCCCcccHHHHHHHH
Q 047934          292 -----RGVEKAQSVIATLKEKGFLVNDKAVREFL  320 (344)
Q Consensus       292 -----G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll  320 (344)
                           +.++++.+.+.......-. +...|..+-
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~  233 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTDPN-DQSAWFYHR  233 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHH
Confidence                 4578888888877764321 334444433

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=93.73  E-value=0.14  Score=52.23  Aligned_cols=108  Identities=11%  Similarity=0.008  Sum_probs=75.0

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 047934          177 VAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC  256 (344)
Q Consensus       177 ~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~  256 (344)
                      ..++..+.+.|..++|+++.+.-.            .-...+..+|++++|.++.+.+.      +...|..|-..+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~~~A~~~~~~~~------~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQLTLARDLLTDES------AEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCHHHHHHHHTTCC------CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCHHHHHHHHHhhC------cHhHHHHHHHHHHHc
Confidence            457777888899999887764221            12445678899999999876542      778999999999999


Q ss_pred             CCHHHHHHHHHHHHHcC-------CCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047934          257 NKLEEAVEYCIEMLEAG-------HSPNVTTFVGLVDGLCRERGVEKAQSVIA  302 (344)
Q Consensus       257 g~~~~A~~lf~~M~~~g-------v~pd~~ty~~lL~a~~~~G~~e~a~~l~~  302 (344)
                      ++++.|.++|..+....       ..-+..-...+...+...|+++.|..++-
T Consensus       695 ~~~~~A~~~y~~~~d~~~l~~l~~~~~~~~~~~~~~~~a~~~~~~~~A~~~~~  747 (814)
T 3mkq_A          695 FNFKLAIEAFTNAHDLESLFLLHSSFNNKEGLVTLAKDAETTGKFNLAFNAYW  747 (814)
T ss_dssp             TCHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHccChhhhHHHHHHcCCHHHHHHHHHHHHHcCchHHHHHHHH
Confidence            99999999999875421       01133334445555555666666665543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=93.33  E-value=4.8  Score=36.88  Aligned_cols=156  Identities=8%  Similarity=-0.073  Sum_probs=99.5

Q ss_pred             HHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcC--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH----HHc---CCHH
Q 047934          157 PQEADEIFKKMKETGLIP--NAVAMLDGLCKDG--LIQEAMKLFGLMREKGTIPEVVIYTAVVDGF----CKA---QKFD  225 (344)
Q Consensus       157 ~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g--~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay----~k~---g~~e  225 (344)
                      -++|+++++.+...+-.-  -|+.==..+...+  ++++++++++.+....-+ +..+|+---..+    .+.   ++++
T Consensus        49 s~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~  127 (306)
T 3dra_A           49 SERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPY  127 (306)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTH
T ss_pred             CHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHH
Confidence            456666666665533110  0221122333455  899999999988876433 444554433333    444   7889


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC------HHHH
Q 047934          226 DAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLE--EAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERG------VEKA  297 (344)
Q Consensus       226 ~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~--~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~------~e~a  297 (344)
                      +++.+++.+.+.. .-+-..|+.---.+.+.+.++  ++++++++|.+.... |...|+----.+.+.+.      ++++
T Consensus       128 ~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eE  205 (306)
T 3dra_A          128 REFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEE  205 (306)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHH
Confidence            9999999998764 337788888877778888887  899999999876433 66677655555555555      7778


Q ss_pred             HHHHHHHHHCCCcccHHHH
Q 047934          298 QSVIATLKEKGFLVNDKAV  316 (344)
Q Consensus       298 ~~l~~~M~~~Gi~p~~~~~  316 (344)
                      .+.+..+...... |...|
T Consensus       206 l~~~~~aI~~~p~-n~SaW  223 (306)
T 3dra_A          206 LNYVKDKIVKCPQ-NPSTW  223 (306)
T ss_dssp             HHHHHHHHHHCSS-CHHHH
T ss_pred             HHHHHHHHHhCCC-CccHH
Confidence            8888777765433 33444

>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=93.19  E-value=0.76  Score=38.25  Aligned_cols=114  Identities=10%  Similarity=0.029  Sum_probs=70.8

Q ss_pred             HcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047934          185 KDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQK----------FDDAKRIFRKMQSNGIAPNAFSYNLLIQGLY  254 (344)
Q Consensus       185 k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~----------~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~  254 (344)
                      +.+.+++|.+.++...+.. +-+...|+.+=.++...++          +++|...|++..+..-. +...|..+=.+|.
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay~   91 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHH
Confidence            4445667777776665543 2255666655555555544          45788888877764211 4567777777777


Q ss_pred             HcC-----------CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          255 KCN-----------KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       255 k~g-----------~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      ..|           ++++|++.|++..+.  .|+...|...+..+      +++-+++-++...+
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~~------~ka~el~~~~~~~~  148 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT------AKAPQLHAEAYKQG  148 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHH------HhCHhccCcccccc
Confidence            654           788888888887765  56666665555443      45555555555543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=92.70  E-value=0.94  Score=32.66  Aligned_cols=53  Identities=11%  Similarity=0.169  Sum_probs=24.2

Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          218 FCKAQKFDDAKRIFRKMQSNGIAPNAF-SYNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       218 y~k~g~~e~A~~vf~~M~~~gi~pd~~-tyn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      +.+.|++++|...|+...+.. .-+.. .|..+-.+|.+.|++++|.+.|++..+
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            344445555555554444331 11233 444444445555555555555554444

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=92.56  E-value=0.96  Score=32.62  Aligned_cols=58  Identities=12%  Similarity=0.138  Sum_probs=47.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEVV-IYTAVVDGFCKAQKFDDAKRIFRKMQSN  237 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~~-tyn~LI~ay~k~g~~e~A~~vf~~M~~~  237 (344)
                      ....+.+.|++++|.+.|+...+.. +-+.. .+..+-.+|...|++++|...|++..+.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3456778899999999999887753 23566 8888888999999999999999998875

>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=92.46  E-value=6.4  Score=39.19  Aligned_cols=120  Identities=9%  Similarity=0.039  Sum_probs=92.4

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          188 LIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQK----------FDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       188 ~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~----------~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      ..++|++.++.+.+..-. +..+|+.-=.++.+.++          ++++...++.+.+..-+ +...|+.--..+.+.+
T Consensus        44 ~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcc
Confidence            457889999998876422 45666655555555555          89999999999886433 7788998888888889


Q ss_pred             --CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCc
Q 047934          258 --KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRER-GVEKAQSVIATLKEKGFL  310 (344)
Q Consensus       258 --~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G-~~e~a~~l~~~M~~~Gi~  310 (344)
                        ++++++++++++.+.... |..+|+.---.+.+.| ..+++.+.++.+.+....
T Consensus       122 ~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~  176 (567)
T 1dce_A          122 EPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS  176 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC
T ss_pred             cccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC
Confidence              789999999999987533 7888887777777888 889999998888776543

>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=92.22  E-value=7.6  Score=36.37  Aligned_cols=159  Identities=10%  Similarity=-0.027  Sum_probs=107.6

Q ss_pred             CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHcC-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc-C-CHHHHHHH
Q 047934          156 PPQEADEIFKKMKETGLIP--NAVAMLDGLCKDG-LIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKA-Q-KFDDAKRI  230 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p--~~~tli~~~~k~g-~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~-g-~~e~A~~v  230 (344)
                      ..++|+++++.+...+-.-  -|+.-=..+...| .+++++++++.+....-+ +..+|+---..+... + +.++++.+
T Consensus        69 ~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~  147 (349)
T 3q7a_A           69 KSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEY  147 (349)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHH
Confidence            3457888888777654221  0222122233456 599999999999876443 777887776666666 6 88999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC-------HH
Q 047934          231 FRKMQSNGIAPNAFSYNLLIQGLYKCNKLE--------EAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERG-------VE  295 (344)
Q Consensus       231 f~~M~~~gi~pd~~tyn~LI~ay~k~g~~~--------~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~-------~e  295 (344)
                      ++.+.+... -|...|+.---.+.+.+.++        ++++.++++.+.... |...|+-.-..+.+.+.       ++
T Consensus       148 ~~k~L~~dp-kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~~~~~  225 (349)
T 3q7a_A          148 IHGSLLPDP-KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSSRSLQ  225 (349)
T ss_dssp             HHHHTSSCT-TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCHHHHH
T ss_pred             HHHHHHhCC-CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccchHHHH
Confidence            999987643 37778876555555555555        899999999886433 77788777666666665       67


Q ss_pred             HHHHHHHHHHHCCCcccHHHHHH
Q 047934          296 KAQSVIATLKEKGFLVNDKAVRE  318 (344)
Q Consensus       296 ~a~~l~~~M~~~Gi~p~~~~~~~  318 (344)
                      ++.+.+..+....-. |...|+-
T Consensus       226 eELe~~~~aI~~~P~-n~SaW~Y  247 (349)
T 3q7a_A          226 DELIYILKSIHLIPH-NVSAWNY  247 (349)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHH
Confidence            888888877765433 4455533

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=91.43  E-value=5.8  Score=33.48  Aligned_cols=51  Identities=10%  Similarity=0.106  Sum_probs=26.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKM  234 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M  234 (344)
                      +=+....+.|+++.|.++.+.+      -+...|..|=+.....|+++-|++.|...
T Consensus        10 ~rF~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           10 IRFDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHh
Confidence            3344444555555555554443      14455555555555555555555555544

>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=91.35  E-value=5.2  Score=37.15  Aligned_cols=15  Identities=13%  Similarity=0.067  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHHHCC
Q 047934          157 PQEADEIFKKMKETG  171 (344)
Q Consensus       157 ~~~A~~lf~~M~~~g  171 (344)
                      +++++.+++.+.+.+
T Consensus       126 ~~~EL~~~~k~l~~d  140 (331)
T 3dss_A          126 WARELELCARFLEAD  140 (331)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhC
Confidence            445555555555443

>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=91.08  E-value=10  Score=35.53  Aligned_cols=146  Identities=12%  Similarity=0.077  Sum_probs=102.9

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC-CHHHHHHHH
Q 047934          153 ISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQ-KFDDAKRIF  231 (344)
Q Consensus       153 ~sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g-~~e~A~~vf  231 (344)
                      .+.++.+|...|..+...+-.               .++|+++++.+....- -+..+|+.-=..+...+ .+++++.++
T Consensus        49 y~~~y~~~~~~~r~~~~~~e~---------------se~AL~lt~~~L~~nP-~~ytaWn~R~~iL~~l~~~l~eEL~~~  112 (349)
T 3q7a_A           49 YSEEYKDAMDYFRAIAAKEEK---------------SERALELTEIIVRMNP-AHYTVWQYRFSLLTSLNKSLEDELRLM  112 (349)
T ss_dssp             CCHHHHHHHHHHHHHHHTTCC---------------SHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             eCHHHHHHHHHHHHHHHhCCC---------------CHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            345677888888777776644               3689999998887632 25667777767777778 599999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHc-C-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH--------HHHHHH
Q 047934          232 RKMQSNGIAPNAFSYNLLIQGLYKC-N-KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVE--------KAQSVI  301 (344)
Q Consensus       232 ~~M~~~gi~pd~~tyn~LI~ay~k~-g-~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e--------~a~~l~  301 (344)
                      +.+....-+ +...|+.--..+.+. + .+++++++++.+.+.. .-|..+|+----.+.+.|..+        ++.+.+
T Consensus       113 ~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~  190 (349)
T 3q7a_A          113 NEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWC  190 (349)
T ss_dssp             HHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHH
T ss_pred             HHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHH
Confidence            999987543 778898877777776 6 8899999999998653 236677765443444444444        888888


Q ss_pred             HHHHHCCCcccHHHHH
Q 047934          302 ATLKEKGFLVNDKAVR  317 (344)
Q Consensus       302 ~~M~~~Gi~p~~~~~~  317 (344)
                      +.+.+.... |...|+
T Consensus       191 ~k~I~~dp~-N~SAW~  205 (349)
T 3q7a_A          191 NEMLRVDGR-NNSAWG  205 (349)
T ss_dssp             HHHHHHCTT-CHHHHH
T ss_pred             HHHHHhCCC-CHHHHH
Confidence            888876543 333333

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=90.47  E-value=5.4  Score=33.70  Aligned_cols=124  Identities=9%  Similarity=0.007  Sum_probs=89.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRK  233 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~  233 (344)
                      .|+++.|.++-+++   +....|..|-......|+++-|.+.|....+         |..|.--|.-.|+.+...++-+.
T Consensus        18 lg~l~~A~e~a~~l---~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kla~i   85 (177)
T 3mkq_B           18 YGNLDAALDEAKKL---NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKMQNI   85 (177)
T ss_dssp             TTCHHHHHHHHHHH---CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHh---CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHHHHH
Confidence            67899999998776   3333588999999999999999999987643         45677777888888877766655


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          234 MQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       234 M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      -...|      -++....++...|+++++.++|.+.-.   -|.      -+-.....|..+.|.++.+++
T Consensus        86 A~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r---~~e------A~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           86 AQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGS---LPL------AYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC---HHH------HHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCC---hHH------HHHHHHHcCcHHHHHHHHHHh
Confidence            55554      466677777788999999999865432   111      111122367788888888765

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=89.84  E-value=2.8  Score=34.57  Aligned_cols=82  Identities=13%  Similarity=0.187  Sum_probs=46.2

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHcCCHHHHH
Q 047934          189 IQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQ---KFDDAKRIFRKMQSNGIAP--NAFSYNLLIQGLYKCNKLEEAV  263 (344)
Q Consensus       189 ~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g---~~e~A~~vf~~M~~~gi~p--d~~tyn~LI~ay~k~g~~~~A~  263 (344)
                      ...+.+-|.+..+.|. ++..+.-.+--++++..   +++++..+|+...+.. .|  ....+=.|--+|.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            3445555555555444 45555555555666666   4556777777766653 12  1223333444556777777777


Q ss_pred             HHHHHHHHc
Q 047934          264 EYCIEMLEA  272 (344)
Q Consensus       264 ~lf~~M~~~  272 (344)
                      +.++.+.+.
T Consensus        92 ~y~~~lL~i  100 (152)
T 1pc2_A           92 KYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            777776654

>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=88.24  E-value=1.2  Score=36.99  Aligned_cols=102  Identities=11%  Similarity=0.053  Sum_probs=76.6

Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC----------HHHHHHHHHHHHHcCCCC-CHHHHHHHHHH
Q 047934          219 CKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK----------LEEAVEYCIEMLEAGHSP-NVTTFVGLVDG  287 (344)
Q Consensus       219 ~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~----------~~~A~~lf~~M~~~gv~p-d~~ty~~lL~a  287 (344)
                      .+.+.+++|.+.++...+.. .-+...|..+=.++...++          +++|+..|++..+.  .| +..+|..+-.+
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG~a   89 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHHHH
Confidence            45567889999999887753 2267788777777777765          45899999888775  34 57788889999


Q ss_pred             HHHcC-----------CHHHHHHHHHHHHHCCCcccHHHHHHHHhccCC
Q 047934          288 LCRER-----------GVEKAQSVIATLKEKGFLVNDKAVREFLDKKAP  325 (344)
Q Consensus       288 ~~~~G-----------~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak  325 (344)
                      |...|           ++++|.+.|+...+.  .|+...|...+++..+
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~~~k  136 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMTAK  136 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHT
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHh
Confidence            98774           899999999988874  6777777777665443

>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=87.92  E-value=14  Score=34.90  Aligned_cols=123  Identities=10%  Similarity=0.001  Sum_probs=80.3

Q ss_pred             CHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHH----HcC-C---HHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHHcC
Q 047934          188 LIQEAMKLFGLMREKGTIPE-VVIYTAVVDGFC----KAQ-K---FDDAKRIFRKMQS-NGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       188 ~~~~A~~lf~~M~~~g~~pd-~~tyn~LI~ay~----k~g-~---~e~A~~vf~~M~~-~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      ...+|..+|++..+.  .|+ ...|..+--+|.    ..+ .   .+....-+..... ..-..+..+|.++--.+...|
T Consensus       214 ~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~g  291 (372)
T 3ly7_A          214 SLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLPELNNLSIIYQIKAVSALVKG  291 (372)
T ss_dssp             HHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCC
Confidence            347899999988775  343 344443333332    111 1   1111112222111 122557888888877777789


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHH
Q 047934          258 KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAV  316 (344)
Q Consensus       258 ~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~  316 (344)
                      ++++|...+++....+  |+...|..+-..+.-.|+.++|.+.+++....  .|...+|
T Consensus       292 d~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~  346 (372)
T 3ly7_A          292 KTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTL  346 (372)
T ss_dssp             CHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHH
T ss_pred             CHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChH
Confidence            9999999999999886  78877877777788899999999999887765  4444444

>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=87.56  E-value=2.9  Score=39.61  Aligned_cols=68  Identities=13%  Similarity=0.105  Sum_probs=45.8

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----cCCCCCHHH
Q 047934          212 TAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE-----AGHSPNVTT  280 (344)
Q Consensus       212 n~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~-----~gv~pd~~t  280 (344)
                      ..++.++...|+.++|...+..+... -..+...|..+|.+|.++|+..+|++.|+++..     .|+.|...+
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            44566666777777777776666543 133666777777777777777777777776543     477777665

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=87.44  E-value=4.5  Score=30.11  Aligned_cols=65  Identities=9%  Similarity=0.072  Sum_probs=37.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          207 EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSN------GIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~------gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      +...+-.|=..+.+.++++.|...|+...+.      .-......|..|-.+|.+.|++++|..++++..+
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            3344445555556666666666666555432      0122445666666677777777777777766655

>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=86.20  E-value=5.2  Score=37.90  Aligned_cols=121  Identities=12%  Similarity=0.032  Sum_probs=82.9

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHH----HHHHHHH----HcC-CHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHHHHcC
Q 047934          156 PPQEADEIFKKMKETGLIPNAV----AMLDGLC----KDG-LIQEAMKLFGLMRE----KGTIPEVVIYTAVVDGFCKAQ  222 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p~~~----tli~~~~----k~g-~~~~A~~lf~~M~~----~g~~pd~~tyn~LI~ay~k~g  222 (344)
                      ...+|..+|++..+.+  |+..    .+-.+|.    ... .......+-..+..    .....+..+|.++-.++...|
T Consensus       214 ~~~~A~~l~e~Al~lD--P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~g  291 (372)
T 3ly7_A          214 SLNRASELLGEIVQSS--PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLPELNNLSIIYQIKAVSALVKG  291 (372)
T ss_dssp             HHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCC
Confidence            5689999999988754  4322    1111221    111 11111111111211    123668899999888888889


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 047934          223 KFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFV  282 (344)
Q Consensus       223 ~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~  282 (344)
                      ++++|...+++....+  |+...|..+=..+.-.|++++|.+.|++-...  .|...||.
T Consensus       292 d~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~  347 (372)
T 3ly7_A          292 KTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLY  347 (372)
T ss_dssp             CHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHH
T ss_pred             CHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHH
Confidence            9999999999999875  78888888888888999999999999887765  57777764

>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=85.44  E-value=3.2  Score=39.24  Aligned_cols=70  Identities=14%  Similarity=0.204  Sum_probs=58.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCCHHHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQS-----NGIAPNAFSYNL  248 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~-----~gi~pd~~tyn~  248 (344)
                      .++..+...|+.++|......+... -+.+...|-.||.+|.++|+..+|+++|+.+.+     .|++|+..+-..
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l  250 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  250 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            3677888899999999988888755 355889999999999999999999999998755     489998776433

>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=85.41  E-value=23  Score=32.74  Aligned_cols=147  Identities=7%  Similarity=-0.011  Sum_probs=104.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCH---H---HHHHHHHHcC-------CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC-
Q 047934          157 PQEADEIFKKMKETGLIPNA---V---AMLDGLCKDG-------LIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQ-  222 (344)
Q Consensus       157 ~~~A~~lf~~M~~~gi~p~~---~---tli~~~~k~g-------~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g-  222 (344)
                      -++|+++++.+...+-. ..   +   -++..+....       .+++++.+++.+....- -+..+|+----.+.+.+ 
T Consensus        46 s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~P-Kny~aW~hR~wlL~~l~~  123 (331)
T 3dss_A           46 DESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWLLSRLPE  123 (331)
T ss_dssp             SHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHCSS
T ss_pred             CHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHhccCc
Confidence            45788888888865422 22   2   2444444422       26789999998887643 37788877777777777 


Q ss_pred             -CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc---------
Q 047934          223 -KFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNK-LEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRE---------  291 (344)
Q Consensus       223 -~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~-~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~---------  291 (344)
                       .+++++.+++.+.+... -|...|+.---.+...|. ++++++.++++.+.... |...|+-.-..+.+.         
T Consensus       124 ~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~  201 (331)
T 3dss_A          124 PNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQ  201 (331)
T ss_dssp             CCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCCC-----
T ss_pred             ccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhccccccc
Confidence             48999999999988643 378889888777788888 69999999999986533 677776655555444         


Q ss_pred             -----CCHHHHHHHHHHHHHC
Q 047934          292 -----RGVEKAQSVIATLKEK  307 (344)
Q Consensus       292 -----G~~e~a~~l~~~M~~~  307 (344)
                           +.++++.+.+......
T Consensus       202 ~~~~~~~~~eEle~~~~ai~~  222 (331)
T 3dss_A          202 GRLPENVLLKELELVQNAFFT  222 (331)
T ss_dssp             -CCCHHHHHHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHHHh
Confidence                 4467777777777654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=85.31  E-value=7  Score=32.12  Aligned_cols=80  Identities=14%  Similarity=0.163  Sum_probs=43.1

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHH---HHHHHHHcC---CHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHcCCHHHH
Q 047934          156 PPQEADEIFKKMKETGLIPNAVA---MLDGLCKDG---LIQEAMKLFGLMREKGTIP--EVVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p~~~t---li~~~~k~g---~~~~A~~lf~~M~~~g~~p--d~~tyn~LI~ay~k~g~~e~A  227 (344)
                      .+..+++-|.+..+.|.. +..+   +--++++..   +++++..+|++..+.. .|  ....+=.|=-+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~~-~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCCC-cHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            455666666655554442 3332   444555555   5556777777666653 12  122222233345677777777


Q ss_pred             HHHHHHHHHC
Q 047934          228 KRIFRKMQSN  237 (344)
Q Consensus       228 ~~vf~~M~~~  237 (344)
                      ++.++.+.+.
T Consensus        91 ~~y~~~lL~i  100 (152)
T 1pc2_A           91 LKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            7777776653

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=85.30  E-value=7.6  Score=28.76  Aligned_cols=66  Identities=15%  Similarity=0.040  Sum_probs=53.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          242 NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA------GHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       242 d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~------gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +..-+-.|-..+.+.++++.|...|+...+.      .-......+..+-.+|.+.|++++|..++++..+.
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            4555667778888999999999999987653      11345677888999999999999999999998864

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=84.61  E-value=8.2  Score=28.38  Aligned_cols=65  Identities=12%  Similarity=0.191  Sum_probs=38.6

Q ss_pred             CHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          207 EVVIYTAVVDGFCKAQK---FDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       207 d~~tyn~LI~ay~k~g~---~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      |...+..+-.++...++   .++|..+|++..+.. .-++..+..+-..+.+.|++++|...|+++.+.
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            44455555555543333   567777777766542 113455556666666777777777777777664

>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=81.61  E-value=4.7  Score=30.99  Aligned_cols=48  Identities=8%  Similarity=0.098  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          224 FDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       224 ~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      .-++++-++.+....+.|+.....+.+.||-+.+++..|.++|+..+.
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            334555555555555555555555555555555555555555555544

>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=80.69  E-value=24  Score=32.31  Aligned_cols=105  Identities=14%  Similarity=0.103  Sum_probs=69.9

Q ss_pred             HHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHHc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc-CCHH
Q 047934          190 QEAMKLFGLMREKGTIPE---VVIYTAVVDGFCKA-----QKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC-NKLE  260 (344)
Q Consensus       190 ~~A~~lf~~M~~~g~~pd---~~tyn~LI~ay~k~-----g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~-g~~~  260 (344)
                      ..|..++++..+  +.|+   -..|..|-..|.+.     |+.++|++.|++..+-.-.-+..++...-+.|+.. |+.+
T Consensus       180 ~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          180 HAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            344444544444  3344   45788888888884     88899999998887753222477777888888874 8888


Q ss_pred             HHHHHHHHHHHcCCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047934          261 EAVEYCIEMLEAGHS--PNVTTFVGLVDGLCRERGVEKAQSVIATL  304 (344)
Q Consensus       261 ~A~~lf~~M~~~gv~--pd~~ty~~lL~a~~~~G~~e~a~~l~~~M  304 (344)
                      ++.+.+++.......  |+....+.+-        -++|..++..+
T Consensus       258 ~a~~~L~kAL~a~p~~~P~~~lan~~~--------q~eA~~LL~~~  295 (301)
T 3u64_A          258 GFDEALDRALAIDPESVPHNKLLVILS--------QKRARWLKAHV  295 (301)
T ss_dssp             HHHHHHHHHHHCCGGGCSSCHHHHHHH--------HHHHHHHHHTH
T ss_pred             HHHHHHHHHHcCCCCCCCChhHHHHHH--------HHHHHHHHHHh
Confidence            889888888887665  6655444332        24555555443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	344
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.56
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.32
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.32
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.27
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.12
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.08
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.74
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.54
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.52
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	97.49
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.49
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.36
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.35
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.33
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.27
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.24
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.22
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.19
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.17
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.07
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.05
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.99
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	96.98
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	96.78
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	96.78
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	96.64
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.63
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	96.48
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	96.45
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	96.24
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	96.13
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.12
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.08
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	95.92
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	95.85
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	95.84
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	95.66
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	95.37
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	95.18
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	94.6
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	94.57
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	94.55
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	94.09
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	94.08
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	93.39
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	92.31
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	91.58
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	90.2
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	89.73
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	89.04
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	87.25
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	86.64
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	85.59
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	85.11

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.56  E-value=2.4e-06  Score=76.29  Aligned_cols=170  Identities=14%  Similarity=0.028  Sum_probs=122.1

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLIPN--AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p~--~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      +...|++++|...|+.....+....  +..+-..+.+.|++++|.+.|+...+.. +-+..++..+-..|...|++++|.
T Consensus       213 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~  291 (388)
T d1w3ba_         213 LKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAE  291 (388)
T ss_dssp             HHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHH
T ss_pred             hhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            3446778888888888776543321  1235677778888888888888877642 235678888888888888888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          229 RIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP-NVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      ..|+..... ...+...+..+...|.+.|++++|++.|++..+.  .| +..++..+-..|...|++++|.+.+++..+.
T Consensus       292 ~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         292 DCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888877664 2446778888888888888888888888887653  34 4666777888888888888888888887753


Q ss_pred             CCccc-HHHHHHHHhccCCC
Q 047934          308 GFLVN-DKAVREFLDKKAPF  326 (344)
Q Consensus       308 Gi~p~-~~~~~~Ll~~yak~  326 (344)
                        .|+ ...+..|-..|.+.
T Consensus       369 --~P~~~~a~~~lg~~~~~~  386 (388)
T d1w3ba_         369 --SPTFADAYSNMGNTLKEM  386 (388)
T ss_dssp             --CTTCHHHHHHHHHHHHHT
T ss_pred             --CCCCHHHHHHHHHHHHHc
Confidence              443 44555555554433

>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=98.32  E-value=2.9e-05  Score=69.35  Aligned_cols=170  Identities=14%  Similarity=0.110  Sum_probs=116.5

Q ss_pred             CHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047934          156 PPQEADEIFKKMKETGLIPN---AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFR  232 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p~---~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~  232 (344)
                      ..++|..+|++..+....-+   |..++..+.+.|..++|..+|+.+.+........+|...+..+.+.|.++.|+++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            46788888888765432212   345677777888999999999888765443345678888888888899999999998


Q ss_pred             HHHHCCCCCCHHHHHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-Cc
Q 047934          233 KMQSNGIAPNAFSYNLLIQG-LYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKG-FL  310 (344)
Q Consensus       233 ~M~~~gi~pd~~tyn~LI~a-y~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G-i~  310 (344)
                      .+.+.+.. +...|...... +...|+.+.|..+|+.+... ..-+...|...+..+.+.|+.+.|+.+|+...+.. ..
T Consensus       159 ~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         159 KAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            88776432 23333333222 33457888899999888775 23357778888888888899999999999877653 44


Q ss_pred             cc--HHHHHHHHhccCCCC
Q 047934          311 VN--DKAVREFLDKKAPFS  327 (344)
Q Consensus       311 p~--~~~~~~Ll~~yak~g  327 (344)
                      |.  ...|..++.--...|
T Consensus       237 ~~~~~~iw~~~~~fE~~~G  255 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIG  255 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHS
T ss_pred             hHHHHHHHHHHHHHHHHcC
Confidence            43  345555554433344

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.32  E-value=2.3e-05  Score=69.70  Aligned_cols=172  Identities=12%  Similarity=0.021  Sum_probs=136.7

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLI--PNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKR  229 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~--p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~  229 (344)
                      ...|++++|...+++..+..-.  ..+..+-..+...|++++|...|........ .+..++..+-..|.+.|++++|..
T Consensus       180 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~  258 (388)
T d1w3ba_         180 NAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAID  258 (388)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHHHHHH
Confidence            3467899999999987764311  1133567888899999999999998887643 467888889999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 047934          230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGF  309 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi  309 (344)
                      .|++..+.. +-+..+|..+...|.+.|++++|.+.++..... ...+...+..+...+...|++++|.+.+++..+.  
T Consensus       259 ~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--  334 (388)
T d1w3ba_         259 TYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV--  334 (388)
T ss_dssp             HHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--
Confidence            999988753 225778999999999999999999999987765 3457788888999999999999999999998764  


Q ss_pred             ccc-HHHHHHHHhccCCCCh
Q 047934          310 LVN-DKAVREFLDKKAPFSS  328 (344)
Q Consensus       310 ~p~-~~~~~~Ll~~yak~g~  328 (344)
                      .|+ ..++..+-..|.+.|.
T Consensus       335 ~p~~~~~~~~la~~~~~~g~  354 (388)
T d1w3ba_         335 FPEFAAAHSNLASVLQQQGK  354 (388)
T ss_dssp             CTTCHHHHHHHHHHHHTTTC
T ss_pred             CCCCHHHHHHHHHHHHHcCC
Confidence            343 4556666666666664

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.27  E-value=0.00011  Score=64.91  Aligned_cols=174  Identities=10%  Similarity=-0.074  Sum_probs=125.9

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCC-C-CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLI-P-NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~-p-~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      ++..|++++|++.|++..+.+-. + .|..+-..|...|++++|...|....+.. +-+...|..+...|...|++++|.
T Consensus        29 ~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~  107 (323)
T d1fcha_          29 RLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQAC  107 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccccccc
Confidence            45578999999999998876422 1 13356778889999999999999887653 236788888888999999999988


Q ss_pred             HHHHHHHHCC--------------------------------------------------CCCCHHHHHHHHHHHHHcCC
Q 047934          229 RIFRKMQSNG--------------------------------------------------IAPNAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       229 ~vf~~M~~~g--------------------------------------------------i~pd~~tyn~LI~ay~k~g~  258 (344)
                      +.++......                                                  -..+...|..+-..+...|+
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~  187 (323)
T d1fcha_         108 EILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGE  187 (323)
T ss_dssp             HHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTC
T ss_pred             cchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHH
Confidence            8887754321                                                  02244566777778888999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCC
Q 047934          259 LEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFS  327 (344)
Q Consensus       259 ~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g  327 (344)
                      +++|+..|++..... .-+..+|..+-..|...|++++|.+.++...+.. .-+..++..+-..|.+.|
T Consensus       188 ~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g  254 (323)
T d1fcha_         188 YDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLG  254 (323)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             Hhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCC
Confidence            999999999877653 2257778888888889999999999999887642 112344554555554444

>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=98.12  E-value=0.00011  Score=65.35  Aligned_cols=168  Identities=11%  Similarity=0.029  Sum_probs=125.6

Q ss_pred             CCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHHcCCHHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIP---NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDG-FCKAQKFDDAKR  229 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p---~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~a-y~k~g~~e~A~~  229 (344)
                      .|+++.|..+|+.+.+..-..   -|..++..+.+.|..+.|.++|+.+.+.+-. +...|-..... +...|+.+.|..
T Consensus       112 ~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~  190 (308)
T d2onda1         112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHH
Confidence            678999999999988654321   1456788888999999999999998876532 33333333322 344588999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          230 IFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG-HSPN--VTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       230 vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g-v~pd--~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      +|+.+... ..-+...|...++.+.+.|+.+.|..+|++..... ..|+  ...|...+.--...|+.+.+.++.+.+.+
T Consensus       191 i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         191 IFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999875 33467899999999999999999999999987753 4443  45788888877889999999999998765


Q ss_pred             C-CCcccHHHHHHHHhcc
Q 047934          307 K-GFLVNDKAVREFLDKK  323 (344)
Q Consensus       307 ~-Gi~p~~~~~~~Ll~~y  323 (344)
                      . .-.+.......+++.|
T Consensus       270 ~~~~~~~~~~~~~~~~ry  287 (308)
T d2onda1         270 AFREEYEGKETALLVDRY  287 (308)
T ss_dssp             HTTTTTSSCHHHHHHTTT
T ss_pred             HCccccccchHHHHHHHH
Confidence            3 3333334455666655

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.08  E-value=0.00024  Score=62.49  Aligned_cols=152  Identities=16%  Similarity=0.074  Sum_probs=116.5

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHcC-----------------------
Q 047934          151 EPISEPPQEADEIFKKMKETGLIPN----AVAMLDGLCKDGLIQEAMKLFGLMREKG-----------------------  203 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~g-----------------------  203 (344)
                      +...|++++|...|++..+..  |+    +..+...|...|++++|.+.++......                       
T Consensus        63 ~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (323)
T d1fcha_          63 QAENEQELLAISALRRCLELK--PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSK  140 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------
T ss_pred             HHHcCChHHHHHHHHhhhccc--cccccccccccccccccccccccccchhhHHHhccchHHHHHhhhhhhhhcccccch
Confidence            344678888888888876542  22    2345667778888888877777653221                       


Q ss_pred             ---------------------------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 047934          204 ---------------------------TIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC  256 (344)
Q Consensus       204 ---------------------------~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~  256 (344)
                                                 -..+..++..+-..+...|++++|...|+...... +-+...|..+-.+|.+.
T Consensus       141 ~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~  219 (323)
T d1fcha_         141 RILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANG  219 (323)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhccccc
Confidence                                       12345667777788899999999999999987653 22578899999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          257 NKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       257 g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                      |++++|.+.|++..+.. +-+..+|..+-.+|.+.|++++|.+.|....+
T Consensus       220 g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         220 NQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999988752 22577888899999999999999999998766

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.74  E-value=0.00085  Score=55.67  Aligned_cols=134  Identities=13%  Similarity=0.071  Sum_probs=102.4

Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH
Q 047934          182 GLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEE  261 (344)
Q Consensus       182 ~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~  261 (344)
                      .+...|++++|++.|..+    ..++..+|..+=.+|.+.|++++|+..|++..+.. +-+...|..+-.+|.+.|+.++
T Consensus        14 ~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHH
Confidence            356788999999998764    35688888889999999999999999999988754 2357789999999999999999


Q ss_pred             HHHHHHHHHHc------------CCC--CC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHH
Q 047934          262 AVEYCIEMLEA------------GHS--PN-VTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFL  320 (344)
Q Consensus       262 A~~lf~~M~~~------------gv~--pd-~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll  320 (344)
                      |++.|++....            |+.  .+ ..++..+-.++.+.|++++|.+.+....+....+........+
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~Al  162 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKAM  162 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHHH
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHHHH
Confidence            99999887642            111  11 2445556677889999999999999888776665544444333

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.54  E-value=0.0015  Score=49.53  Aligned_cols=90  Identities=18%  Similarity=0.113  Sum_probs=61.4

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          181 DGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLE  260 (344)
Q Consensus       181 ~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~  260 (344)
                      ..+.+.|++++|+.+|....+.. +-+...|..+-.+|.+.|++++|+..+....+.. ..+...|..+-.+|...|+++
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            34566677777777777766542 3356667777777777777777777777776653 235666777777777777777


Q ss_pred             HHHHHHHHHHHc
Q 047934          261 EAVEYCIEMLEA  272 (344)
Q Consensus       261 ~A~~lf~~M~~~  272 (344)
                      +|+..|++..+.
T Consensus        89 ~A~~~~~~a~~~  100 (117)
T d1elwa_          89 EAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            777777776653

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=97.52  E-value=0.0093  Score=49.96  Aligned_cols=152  Identities=9%  Similarity=-0.063  Sum_probs=111.8

Q ss_pred             CCCHHHHHHHHHHHHHCCC-CCCHH-----HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          154 SEPPQEADEIFKKMKETGL-IPNAV-----AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi-~p~~~-----tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A  227 (344)
                      +.+.+.|+.-+++...+.. .+...     -+=..|.+.|++++|.+.|+...+.. +-+..+|+.+=.+|.+.|++++|
T Consensus        12 ~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A   90 (259)
T d1xnfa_          12 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAA   90 (259)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHh
Confidence            4467788888888776543 22112     23467788999999999999988753 33788999999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          228 KRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       228 ~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      ...|++..+..- -+..+|..+-.+|...|++++|.+.|+...+.. ..+......+..++.+.+..+....+.......
T Consensus        91 ~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (259)
T d1xnfa_          91 YEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  168 (259)
T ss_dssp             HHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             hhhhhHHHHHHh-hhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc
Confidence            999999988532 246678888899999999999999999987753 224555444555556666666666666655554


Q ss_pred             C
Q 047934          308 G  308 (344)
Q Consensus       308 G  308 (344)
                      .
T Consensus       169 ~  169 (259)
T d1xnfa_         169 D  169 (259)
T ss_dssp             C
T ss_pred             c
Confidence            3

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.49  E-value=0.0048  Score=54.86  Aligned_cols=149  Identities=9%  Similarity=0.020  Sum_probs=113.2

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCC-HH---HHHHHHHHcC-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047934          154 SEPPQEADEIFKKMKETGLIPN-AV---AMLDGLCKDG-LIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAK  228 (344)
Q Consensus       154 sg~~~~A~~lf~~M~~~gi~p~-~~---tli~~~~k~g-~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~  228 (344)
                      .+..++|++++++..+.+  |+ ..   ..-.++...| +.++|+..++...+..- -+..+|+.+-..+.+.|++++|+
T Consensus        56 ~e~~~~Al~~~~~ai~ln--P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p-~~~~a~~~~~~~~~~l~~~~eAl  132 (315)
T d2h6fa1          56 DERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVLVEWLRDPSQEL  132 (315)
T ss_dssp             TCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHH
T ss_pred             CCchHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHH-hhhhHHHHHhHHHHhhccHHHHH
Confidence            567899999999998853  33 22   2334455656 58999999998877632 37889999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC------HHHHHHHHH
Q 047934          229 RIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERG------VEKAQSVIA  302 (344)
Q Consensus       229 ~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~------~e~a~~l~~  302 (344)
                      ..|+.+.+.. .-+...|..+...|.+.|++++|++.|+...+... -+...|+.+-..+.+.+.      +++|.+.+.
T Consensus       133 ~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~  210 (315)
T d2h6fa1         133 EFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDRAVLEREVQYTL  210 (315)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHH
T ss_pred             HHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC-ccHHHHHHHHHHHHHccccchhhhhHHhHHHHH
Confidence            9999998753 22688999999999999999999999999988642 256667655555555544      567777777


Q ss_pred             HHHHC
Q 047934          303 TLKEK  307 (344)
Q Consensus       303 ~M~~~  307 (344)
                      ...+.
T Consensus       211 ~al~~  215 (315)
T d2h6fa1         211 EMIKL  215 (315)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            66654

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.49  E-value=0.0028  Score=50.25  Aligned_cols=91  Identities=10%  Similarity=0.046  Sum_probs=78.3

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          181 DGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLE  260 (344)
Q Consensus       181 ~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~  260 (344)
                      ..|.+.|++++|+..|....+.. +-+...|..+-.+|...|++++|...|+...+.. .-+...|..+..+|...|+++
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHH
Confidence            45779999999999999888764 4478889999999999999999999999998753 336688999999999999999


Q ss_pred             HHHHHHHHHHHcC
Q 047934          261 EAVEYCIEMLEAG  273 (344)
Q Consensus       261 ~A~~lf~~M~~~g  273 (344)
                      +|.+.|++.....
T Consensus        96 eA~~~~~~a~~~~  108 (159)
T d1a17a_          96 AALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHcC
Confidence            9999999988763

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=97.36  E-value=0.023  Score=47.33  Aligned_cols=157  Identities=10%  Similarity=-0.073  Sum_probs=107.2

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 047934          148 NRNEPISEPPQEADEIFKKMKETGLIPN----AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQK  223 (344)
Q Consensus       148 ~~~~~~sg~~~~A~~lf~~M~~~gi~p~----~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~  223 (344)
                      +..+...|++++|++.|++..+.+  |+    +..+-.+|.+.|++++|++.|+...+..- -+..++..+-.+|...|+
T Consensus        44 G~~y~~~g~~~~A~~~~~~al~l~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~  120 (259)
T d1xnfa_          44 GVLYDSLGLRALARNDFSQALAIR--PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIALYYGGR  120 (259)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCHHHHHHHHHHhhccC--CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh-hhhhhHHHHHHHHHHHhh
Confidence            344555899999999999988643  32    33577888999999999999999987632 256788888999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-----------------------------
Q 047934          224 FDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGH-----------------------------  274 (344)
Q Consensus       224 ~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv-----------------------------  274 (344)
                      +++|...|+...+... .+...+..+..++.+.+..+.+..+........-                             
T Consensus       121 ~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  199 (259)
T d1xnfa_         121 DKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLKADAT  199 (259)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999877532 2444444444444444544433333322221100                             


Q ss_pred             -----CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          275 -----SPN-VTTFVGLVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       275 -----~pd-~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                           .|+ ..+|..+-..|...|++++|.+.|+......
T Consensus       200 ~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         200 DNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence                 011 1234556677788999999999999887653

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.35  E-value=0.0024  Score=51.74  Aligned_cols=89  Identities=17%  Similarity=0.052  Sum_probs=75.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCC
Q 047934          180 LDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAP-NAFSYNLLIQGLYKCNK  258 (344)
Q Consensus       180 i~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~p-d~~tyn~LI~ay~k~g~  258 (344)
                      =..|.+.|++++|+..|....+.. +-+..+|+.+-.+|.+.|++++|...|+...+.  .| +..+|..+-.+|.+.|+
T Consensus        11 Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~lg~~~~~l~~   87 (201)
T d2c2la1          11 GNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQCQLEMES   87 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHHHHHHHHCCC
Confidence            356788999999999999877653 447888999999999999999999999988754  45 47789999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 047934          259 LEEAVEYCIEMLE  271 (344)
Q Consensus       259 ~~~A~~lf~~M~~  271 (344)
                      +++|+..|++..+
T Consensus        88 ~~~A~~~~~~al~  100 (201)
T d2c2la1          88 YDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998765

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.33  E-value=0.0017  Score=52.80  Aligned_cols=85  Identities=11%  Similarity=-0.069  Sum_probs=63.9

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCC-CC-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHH
Q 047934          150 NEPISEPPQEADEIFKKMKETGLI-PN-AVAMLDGLCKDGLIQEAMKLFGLMREKGTIP-EVVIYTAVVDGFCKAQKFDD  226 (344)
Q Consensus       150 ~~~~sg~~~~A~~lf~~M~~~gi~-p~-~~tli~~~~k~g~~~~A~~lf~~M~~~g~~p-d~~tyn~LI~ay~k~g~~e~  226 (344)
                      .++..|++++|+..|.+..+.+-. +. +.-+-.+|.+.|++++|+..|+...+.  .| +..+|..+-.+|.+.|++++
T Consensus        13 ~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~lg~~~~~l~~~~~   90 (201)
T d2c2la1          13 RLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQCQLEMESYDE   90 (201)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHH
Confidence            445678899999999887765311 11 224567788899999999999887653  34 57788888899999999999


Q ss_pred             HHHHHHHHHH
Q 047934          227 AKRIFRKMQS  236 (344)
Q Consensus       227 A~~vf~~M~~  236 (344)
                      |...|+...+
T Consensus        91 A~~~~~~al~  100 (201)
T d2c2la1          91 AIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999987754

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.27  E-value=0.0024  Score=48.27  Aligned_cols=90  Identities=12%  Similarity=0.023  Sum_probs=79.0

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          216 DGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVE  295 (344)
Q Consensus       216 ~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e  295 (344)
                      ..+.+.|++++|..+|+...+.. +-+...|..+-.+|.+.|++++|+..+.+..+.. .-+...|..+-.++...|+++
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            45778999999999999998763 3367789999999999999999999999998764 347888999999999999999


Q ss_pred             HHHHHHHHHHHC
Q 047934          296 KAQSVIATLKEK  307 (344)
Q Consensus       296 ~a~~l~~~M~~~  307 (344)
                      +|...++...+.
T Consensus        89 ~A~~~~~~a~~~  100 (117)
T d1elwa_          89 EAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            999999998864

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.24  E-value=0.0027  Score=50.33  Aligned_cols=91  Identities=11%  Similarity=0.104  Sum_probs=79.3

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          216 DGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVE  295 (344)
Q Consensus       216 ~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e  295 (344)
                      ..|.+.|++++|...|++..+.. +-+...|..+-.+|...|++++|...|++..+.. .-+..+|..+..+|...|+++
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHH
Confidence            35779999999999999998864 3378889999999999999999999999998763 336688999999999999999


Q ss_pred             HHHHHHHHHHHCC
Q 047934          296 KAQSVIATLKEKG  308 (344)
Q Consensus       296 ~a~~l~~~M~~~G  308 (344)
                      +|.+.+....+..
T Consensus        96 eA~~~~~~a~~~~  108 (159)
T d1a17a_          96 AALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHcC
Confidence            9999999988763

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.22  E-value=0.0029  Score=47.39  Aligned_cols=92  Identities=10%  Similarity=-0.087  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 047934          176 AVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK  255 (344)
Q Consensus       176 ~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k  255 (344)
                      +..+-..+.+.|++++|...|+...+.. +-+..+|..+-.+|.+.|++++|+..|++..+.. +-+...|..+-.+|..
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~   96 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   96 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHH
Confidence            3334445666777777777777766543 2256677777777777777777777777766542 2246667777777777


Q ss_pred             cCCHHHHHHHHHHH
Q 047934          256 CNKLEEAVEYCIEM  269 (344)
Q Consensus       256 ~g~~~~A~~lf~~M  269 (344)
                      .|++++|++.|++.
T Consensus        97 ~g~~~~A~~~l~~~  110 (112)
T d1hxia_          97 EHNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            77777777776654

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.19  E-value=0.00074  Score=59.33  Aligned_cols=185  Identities=8%  Similarity=-0.025  Sum_probs=120.9

Q ss_pred             cccccCCCCCCCCCHHHHHHHHHHHHHC----CCCCCH----HHHHHHHHHcCCHHHHHHHHHHHHHc----CC-CCCHH
Q 047934          143 QEQKPNRNEPISEPPQEADEIFKKMKET----GLIPNA----VAMLDGLCKDGLIQEAMKLFGLMREK----GT-IPEVV  209 (344)
Q Consensus       143 ~y~~~~~~~~~sg~~~~A~~lf~~M~~~----gi~p~~----~tli~~~~k~g~~~~A~~lf~~M~~~----g~-~pd~~  209 (344)
                      .|.+....+...+++++|.+.|.+..+-    +-.++.    .-+-.+|.+.|++++|.+.++...+.    |. .....
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            4555555555688899999999977652    222222    23677788999999999999865432    21 11245


Q ss_pred             HHHHHHHHHHH-cCCHHHHHHHHHHHHH----CCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-----CCH
Q 047934          210 IYTAVVDGFCK-AQKFDDAKRIFRKMQS----NGIAP-NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHS-----PNV  278 (344)
Q Consensus       210 tyn~LI~ay~k-~g~~e~A~~vf~~M~~----~gi~p-d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~-----pd~  278 (344)
                      ++..+...|-. .|++++|...|.+..+    .+-.+ -..+|..+...|.+.|++++|+++|++.......     ...
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            56666666744 6999999999988653    22111 1346788899999999999999999998764321     121


Q ss_pred             -HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--c--ccHHHHHHHHhccCCCC
Q 047934          279 -TTFVGLVDGLCRERGVEKAQSVIATLKEKGF--L--VNDKAVREFLDKKAPFS  327 (344)
Q Consensus       279 -~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi--~--p~~~~~~~Ll~~yak~g  327 (344)
                       ..+..++..|...|+.+.|.+.++...+..-  .  ........|+.+|....
T Consensus       199 ~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d  252 (290)
T d1qqea_         199 KDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGD  252 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcC
Confidence             1233445566678999999999998876531  1  11334566666665543

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.17  E-value=0.0044  Score=51.06  Aligned_cols=123  Identities=12%  Similarity=-0.047  Sum_probs=93.2

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIF  231 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf  231 (344)
                      ...|+++.|++.|.++...... -|.-+=.+|...|++++|++.|+...+.. +-+...|..+=.+|.+.|++++|...|
T Consensus        16 ~~~~d~~~Al~~~~~i~~~~~~-~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~~~~   93 (192)
T d1hh8a_          16 ADKKDWKGALDAFSAVQDPHSR-ICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAIKDL   93 (192)
T ss_dssp             HHTTCHHHHHHHHHTSSSCCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHhcCCCCHH-HHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHHHHH
Confidence            3478899999999875322111 13356778889999999999999988764 347889999999999999999999999


Q ss_pred             HHHHHCC------------CC--CC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Q 047934          232 RKMQSNG------------IA--PN-AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSP  276 (344)
Q Consensus       232 ~~M~~~g------------i~--pd-~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~p  276 (344)
                      ++.....            ..  .+ ..++..+-.+|.+.|++++|.+.|.........+
T Consensus        94 ~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          94 KEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            9876531            11  11 2456667778999999999999998877665443

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.07  E-value=0.0032  Score=47.16  Aligned_cols=89  Identities=10%  Similarity=-0.021  Sum_probs=75.8

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Q 047934          215 VDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGV  294 (344)
Q Consensus       215 I~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~  294 (344)
                      -..+.+.|++++|...|++..+..- -+...|..+-.+|.+.|++++|+..|++..+.. +-+...|..+-..|...|+.
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhccccc-ccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCH
Confidence            3456789999999999999987632 268899999999999999999999999988753 33588889999999999999


Q ss_pred             HHHHHHHHHHH
Q 047934          295 EKAQSVIATLK  305 (344)
Q Consensus       295 e~a~~l~~~M~  305 (344)
                      ++|.+.+++..
T Consensus       101 ~~A~~~l~~~l  111 (112)
T d1hxia_         101 NAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998753

>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=97.05  E-value=0.0014  Score=50.45  Aligned_cols=93  Identities=15%  Similarity=0.135  Sum_probs=46.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH---HHHHHHHHHHHHCCCCCC-HHHHHHHHHHH
Q 047934          178 AMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKF---DDAKRIFRKMQSNGIAPN-AFSYNLLIQGL  253 (344)
Q Consensus       178 tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~---e~A~~vf~~M~~~gi~pd-~~tyn~LI~ay  253 (344)
                      .+++.+...+++++|.+.|+.....+ +.+..++..+-.++.+.++.   ++|..+|+++......|+ ..+|..|-.+|
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            34555555556666666665555432 22445555555555443332   345555555544322222 12444555555


Q ss_pred             HHcCCHHHHHHHHHHHHH
Q 047934          254 YKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       254 ~k~g~~~~A~~lf~~M~~  271 (344)
                      .+.|++++|++.|++..+
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            556666666666655555

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.99  E-value=0.0054  Score=50.27  Aligned_cols=69  Identities=7%  Similarity=0.022  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCcccHH
Q 047934          245 SYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKE-----KGFLVNDK  314 (344)
Q Consensus       245 tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~-----~Gi~p~~~  314 (344)
                      .+..+..++.+.|++++|+..++++.... .-+...|..++.+|...|+.++|.+.|+.+.+     .|+.|+..
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~  142 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  142 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHH
Confidence            44555555555555555555555555432 22455555555555555555555555555432     35555543

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.98  E-value=0.0055  Score=54.45  Aligned_cols=125  Identities=10%  Similarity=0.004  Sum_probs=104.5

Q ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 047934          182 GLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQ-KFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLE  260 (344)
Q Consensus       182 ~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g-~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~  260 (344)
                      .+.+.+..++|+++++...+.. +-+...|+..-.++...+ ++++|+..++...+.. +-+..+|..+-..+.+.|+++
T Consensus        52 ~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~~l~~~~  129 (315)
T d2h6fa1          52 VLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPS  129 (315)
T ss_dssp             HHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCT
T ss_pred             HHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHHhhccHH
Confidence            3556778899999999998863 336678888888888877 5999999999987753 236889999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 047934          261 EAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGF  309 (344)
Q Consensus       261 ~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi  309 (344)
                      +|++.+.++.+.. .-+...|..+...+...|++++|.+.++.+.+..-
T Consensus       130 eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p  177 (315)
T d2h6fa1         130 QELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV  177 (315)
T ss_dssp             THHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT
T ss_pred             HHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC
Confidence            9999999998753 23688999999999999999999999999988643

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.78  E-value=0.0065  Score=52.92  Aligned_cols=140  Identities=13%  Similarity=-0.025  Sum_probs=102.0

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHHcCCHHHHHHH
Q 047934          156 PPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREK----GTIP-EVVIYTAVVDGFCKAQKFDDAKRI  230 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~----g~~p-d~~tyn~LI~ay~k~g~~e~A~~v  230 (344)
                      ++++|.++|...            -..|...+++++|.+.|....+.    +-.+ -..+|+.+-.+|.+.|++++|...
T Consensus        32 ~~~~Aa~~y~~a------------a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~   99 (290)
T d1qqea_          32 KFEEAADLCVQA------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDS   99 (290)
T ss_dssp             HHHHHHHHHHHH------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cHHHHHHHHHHH------------HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            467787777764            45688899999999999877543    2111 236888899999999999999999


Q ss_pred             HHHHHHC----CC-CCCHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHHcCCHHHHHH
Q 047934          231 FRKMQSN----GI-APNAFSYNLLIQGLYK-CNKLEEAVEYCIEMLEA----GHSP-NVTTFVGLVDGLCRERGVEKAQS  299 (344)
Q Consensus       231 f~~M~~~----gi-~pd~~tyn~LI~ay~k-~g~~~~A~~lf~~M~~~----gv~p-d~~ty~~lL~a~~~~G~~e~a~~  299 (344)
                      ++...+.    |- .....++..+...|-. .|++++|++.+.+..+.    +..+ -..+|..+...+...|++++|.+
T Consensus       100 ~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~  179 (290)
T d1qqea_         100 LENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASD  179 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHH
Confidence            9876442    21 1113455666666644 69999999999887542    2211 13457778888999999999999


Q ss_pred             HHHHHHHC
Q 047934          300 VIATLKEK  307 (344)
Q Consensus       300 l~~~M~~~  307 (344)
                      +++.....
T Consensus       180 ~~~~~~~~  187 (290)
T d1qqea_         180 IYSKLIKS  187 (290)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHh
Confidence            99998875

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.78  E-value=0.0053  Score=47.06  Aligned_cols=104  Identities=15%  Similarity=0.144  Sum_probs=79.3

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCH---HHHHHHHHHHHHcCCCCC-HHHHHHHHHH
Q 047934          212 TAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKL---EEAVEYCIEMLEAGHSPN-VTTFVGLVDG  287 (344)
Q Consensus       212 n~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~---~~A~~lf~~M~~~gv~pd-~~ty~~lL~a  287 (344)
                      ..|++.+...+++++|++.|+.....+ +.+..++..+-.++.+.++.   ++|+++|++.....-.|+ ..+|..+-.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            457788889999999999999988854 33677888888888876655   469999998876543343 2367778888


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCcccHHHHHH
Q 047934          288 LCRERGVEKAQSVIATLKEKGFLVNDKAVRE  318 (344)
Q Consensus       288 ~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~  318 (344)
                      |.+.|++++|.+.|+.+.+.  .|+..-...
T Consensus        82 y~~~g~~~~A~~~~~~aL~~--~P~~~~A~~  110 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT--EPQNNQAKE  110 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHh--CcCCHHHHH
Confidence            99999999999999999884  566443333

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=96.64  E-value=0.081  Score=44.77  Aligned_cols=155  Identities=14%  Similarity=0.067  Sum_probs=108.6

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHcCCHHHHHHHHHHHHHcC----C-CCCHHHHHHHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLIPNA-------VAMLDGLCKDGLIQEAMKLFGLMREKG----T-IPEVVIYTAVVDGFC  219 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~~-------~tli~~~~k~g~~~~A~~lf~~M~~~g----~-~pd~~tyn~LI~ay~  219 (344)
                      ...|++++|++++++..+..-..+.       ..+-..|...|++++|+..|++..+..    . .....++..+...+.
T Consensus        23 ~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  102 (366)
T d1hz4a_          23 INDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILF  102 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHH
Confidence            3478999999999987764311111       124567888999999999999876431    1 112345677778889


Q ss_pred             HcCCHHHHHHHHHHHHH----CCCCC--C-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCCCHHHHHHHHHHH
Q 047934          220 KAQKFDDAKRIFRKMQS----NGIAP--N-AFSYNLLIQGLYKCNKLEEAVEYCIEMLEA----GHSPNVTTFVGLVDGL  288 (344)
Q Consensus       220 k~g~~e~A~~vf~~M~~----~gi~p--d-~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~----gv~pd~~ty~~lL~a~  288 (344)
                      ..|++..+...+.....    .+...  . ...+..+-..|...|+++.+...+......    +......++..+...+
T Consensus       103 ~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (366)
T d1hz4a_         103 AQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCS  182 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHH
Confidence            99999999998887643    22221  1 235566777888999999999999988763    2233455566667777


Q ss_pred             HHcCCHHHHHHHHHHHHH
Q 047934          289 CRERGVEKAQSVIATLKE  306 (344)
Q Consensus       289 ~~~G~~e~a~~l~~~M~~  306 (344)
                      ...+....+...+.....
T Consensus       183 ~~~~~~~~a~~~~~~a~~  200 (366)
T d1hz4a_         183 LARGDLDNARSQLNRLEN  200 (366)
T ss_dssp             HHHTCHHHHHHHHHHHHH
T ss_pred             HhhhhHHHHHHHHHHHHH
Confidence            788999988888876554

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.63  E-value=0.034  Score=45.20  Aligned_cols=101  Identities=13%  Similarity=0.118  Sum_probs=83.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc--CC-CCC------------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREK--GT-IPE------------------VVIYTAVVDGFCKAQKFDDAKRIFRKMQSN  237 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~--g~-~pd------------------~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~  237 (344)
                      .-......|++++|.+.|......  |- -++                  ...+..+...+.+.|++++|...++.+.+.
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~   96 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFE   96 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHh
Confidence            345678899999999999988764  21 111                  245688999999999999999999999886


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----cCCCCCHHH
Q 047934          238 GIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE-----AGHSPNVTT  280 (344)
Q Consensus       238 gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~-----~gv~pd~~t  280 (344)
                      . .-+...|..++.+|.+.|+.++|++.|+++..     .|+.|...|
T Consensus        97 ~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          97 H-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             S-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             C-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            3 34788999999999999999999999999754     599998766

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=96.48  E-value=0.052  Score=42.42  Aligned_cols=90  Identities=16%  Similarity=0.040  Sum_probs=43.5

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCC----CCC-----------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH
Q 047934          181 DGLCKDGLIQEAMKLFGLMREKGT----IPE-----------VVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFS  245 (344)
Q Consensus       181 ~~~~k~g~~~~A~~lf~~M~~~g~----~pd-----------~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~t  245 (344)
                      ..+.+.|++++|+..|.+..+.-.    ..+           ..+|+.+-.+|.+.|++++|+..++...+.. +-++.+
T Consensus        25 ~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka  103 (153)
T d2fbna1          25 NEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKA  103 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhh
Confidence            355677888888888877664310    011           1233334444444444444444444444321 113444


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          246 YNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       246 yn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                      |..+-.+|...|++++|+..|++..+
T Consensus       104 ~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1         104 LYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            44444444444444444444444433

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.45  E-value=0.069  Score=42.46  Aligned_cols=90  Identities=14%  Similarity=0.014  Sum_probs=64.6

Q ss_pred             HHHHcCCHHHHHHHHHHHHHcC-CCC-------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 047934          182 GLCKDGLIQEAMKLFGLMREKG-TIP-------------EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYN  247 (344)
Q Consensus       182 ~~~k~g~~~~A~~lf~~M~~~g-~~p-------------d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn  247 (344)
                      .+.+.|++++|+..|....+.- ..+             -..+|+.+-.+|.+.|++++|+..++...+.. +-++..|.
T Consensus        22 ~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~  100 (170)
T d1p5qa1          22 VYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLS  100 (170)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhH
Confidence            4566677777777776554321 000             12456667778888899999999888887753 22677888


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          248 LLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       248 ~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      .+-.+|...|++++|+..|++..+.
T Consensus       101 ~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1         101 RRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            8888899999999999999888774

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=96.24  E-value=0.097  Score=44.27  Aligned_cols=155  Identities=11%  Similarity=-0.069  Sum_probs=110.1

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCC----H---HHHHHHHHHcCCHHHHHHHHHHHHHc--CCCC----CHHHHHHHHHHH
Q 047934          152 PISEPPQEADEIFKKMKETGLIPN----A---VAMLDGLCKDGLIQEAMKLFGLMREK--GTIP----EVVIYTAVVDGF  218 (344)
Q Consensus       152 ~~sg~~~~A~~lf~~M~~~gi~p~----~---~tli~~~~k~g~~~~A~~lf~~M~~~--g~~p----d~~tyn~LI~ay  218 (344)
                      +..|+++.|...+.......-...    .   ..+...+...+...++...+......  ....    ....+..+...+
T Consensus       144 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  223 (366)
T d1hz4a_         144 WAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYW  223 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHH
T ss_pred             HHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHH
Confidence            346789999999988776432111    1   13456677788999998888765432  1111    134566677788


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH----cCCCCC-HHHHHHHHHHHHH
Q 047934          219 CKAQKFDDAKRIFRKMQSNGIA---PNAFSYNLLIQGLYKCNKLEEAVEYCIEMLE----AGHSPN-VTTFVGLVDGLCR  290 (344)
Q Consensus       219 ~k~g~~e~A~~vf~~M~~~gi~---pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~----~gv~pd-~~ty~~lL~a~~~  290 (344)
                      ...|+.++|...+.........   .....+..+..+|...|++++|...+++...    .+..|+ ..++..+-..|..
T Consensus       224 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~  303 (366)
T d1hz4a_         224 QMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQ  303 (366)
T ss_dssp             HHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHH
Confidence            8999999999999876554222   2245677788899999999999999998764    344443 3456777788899


Q ss_pred             cCCHHHHHHHHHHHHH
Q 047934          291 ERGVEKAQSVIATLKE  306 (344)
Q Consensus       291 ~G~~e~a~~l~~~M~~  306 (344)
                      .|+.++|.+.+.+..+
T Consensus       304 ~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         304 AGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999999987654

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=96.13  E-value=0.12  Score=40.22  Aligned_cols=91  Identities=13%  Similarity=0.031  Sum_probs=74.4

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCC----CCCC-----------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH
Q 047934          216 DGFCKAQKFDDAKRIFRKMQSNG----IAPN-----------AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTT  280 (344)
Q Consensus       216 ~ay~k~g~~e~A~~vf~~M~~~g----i~pd-----------~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~t  280 (344)
                      ..+.+.|++++|...|.+....-    ...+           ..+|+.+-.+|.+.|++++|++.+++..+.. +-+..+
T Consensus        25 ~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka  103 (153)
T d2fbna1          25 NEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKA  103 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhh
Confidence            45678899999999998876531    1111           3467788899999999999999999988763 347899


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          281 FVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       281 y~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      |..+-.++...|++++|...|....+.
T Consensus       104 ~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1         104 LYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999999999998875

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.12  E-value=0.035  Score=42.08  Aligned_cols=90  Identities=14%  Similarity=0.230  Sum_probs=56.8

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCC----HHHHHHHHHHHH
Q 047934          181 DGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNG--IAPN----AFSYNLLIQGLY  254 (344)
Q Consensus       181 ~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~g--i~pd----~~tyn~LI~ay~  254 (344)
                      ..|.+.|++++|++.|....+.. +-+..+|..+-.+|.+.|++++|...++.+.+..  ....    ..+|..+-..+.
T Consensus        12 ~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~~   90 (128)
T d1elra_          12 NDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYF   90 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHH
Confidence            34666777777777777766653 2356677777777777777777777777765421  0000    235555666666


Q ss_pred             HcCCHHHHHHHHHHHHH
Q 047934          255 KCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       255 k~g~~~~A~~lf~~M~~  271 (344)
                      ..+++++|++.|..-..
T Consensus        91 ~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          91 KEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHh
Confidence            67777777777766544

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.08  E-value=0.034  Score=42.19  Aligned_cols=93  Identities=13%  Similarity=0.187  Sum_probs=74.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCC----HHHHHHHHHH
Q 047934          214 VVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAG--HSPN----VTTFVGLVDG  287 (344)
Q Consensus       214 LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~g--v~pd----~~ty~~lL~a  287 (344)
                      +=..|...|++++|...|.+..+..- -+...|..+-.+|.+.|++++|++.+++..+..  ....    ..+|..+-..
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            44568899999999999999988642 368899999999999999999999999987631  1111    2466777778


Q ss_pred             HHHcCCHHHHHHHHHHHHHC
Q 047934          288 LCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       288 ~~~~G~~e~a~~l~~~M~~~  307 (344)
                      +...+++++|.+.+......
T Consensus        89 ~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHhc
Confidence            88899999999999887654

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.92  E-value=0.088  Score=41.79  Aligned_cols=92  Identities=18%  Similarity=0.120  Sum_probs=74.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHC-----CCCC---------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHH
Q 047934          215 VDGFCKAQKFDDAKRIFRKMQSN-----GIAP---------NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTT  280 (344)
Q Consensus       215 I~ay~k~g~~e~A~~vf~~M~~~-----gi~p---------d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~t  280 (344)
                      =..|.+.|++++|...|.+....     +...         -..+|+.+-.+|.+.|++++|+..++...... +-+..+
T Consensus        20 G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a   98 (170)
T d1p5qa1          20 GTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKG   98 (170)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhh
Confidence            34678899999999999887653     1111         13567778889999999999999999988763 237888


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          281 FVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       281 y~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      |..+-.+|...|++++|...|+...+.
T Consensus        99 ~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          99 LSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            999999999999999999999999874

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=95.85  E-value=0.0077  Score=52.53  Aligned_cols=114  Identities=11%  Similarity=0.105  Sum_probs=73.0

Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHHH
Q 047934          184 CKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPN-AFSYNLLIQGLYKCNKLEEA  262 (344)
Q Consensus       184 ~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd-~~tyn~LI~ay~k~g~~~~A  262 (344)
                      .+.|++++|++.+++..+.. +-|...+..|...|+..|++++|...|+...+.  .|+ ...+..+-..+...+.    
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~----   79 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQA----   79 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHH----
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccc----
Confidence            45688888888888877753 447888888999999999999999888888764  333 3344333333322222    


Q ss_pred             HHHHHHHHHc----CC--CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          263 VEYCIEMLEA----GH--SP-NVTTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       263 ~~lf~~M~~~----gv--~p-d~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                         ..++...    .+  .| +...+......+...|+.++|.+++..+.+.
T Consensus        80 ---~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          80 ---RKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             ---HHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ---cHHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence               2222211    11  12 2333444455677789999999998887654

>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=95.84  E-value=0.085  Score=41.60  Aligned_cols=92  Identities=11%  Similarity=-0.032  Sum_probs=52.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHc--------------CC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 047934          180 LDGLCKDGLIQEAMKLFGLMREK--------------GT-IPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAF  244 (344)
Q Consensus       180 i~~~~k~g~~~~A~~lf~~M~~~--------------g~-~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~  244 (344)
                      -..+.+.|++++|++.|.+..+.              .+ +.....|..+-.+|.+.|++++|...++...+.. +-+..
T Consensus        34 ~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~  112 (169)
T d1ihga1          34 GNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTK  112 (169)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhh
Confidence            44566788888888888765431              00 0123344445555556666666666666655542 12445


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          245 SYNLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       245 tyn~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      .|..+-.+|.+.|++++|++.|++..+.
T Consensus       113 a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1         113 ALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            5666666666666666666666655553

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=95.66  E-value=0.13  Score=40.50  Aligned_cols=91  Identities=14%  Similarity=0.058  Sum_probs=63.0

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHc---CCCC-----------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 047934          181 DGLCKDGLIQEAMKLFGLMREK---GTIP-----------EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSY  246 (344)
Q Consensus       181 ~~~~k~g~~~~A~~lf~~M~~~---g~~p-----------d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~ty  246 (344)
                      ..+.+.|++++|...|......   ....           ...+|+.+-.+|.+.|++++|...++...... +.+...|
T Consensus        23 ~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~  101 (168)
T d1kt1a1          23 TVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGL  101 (168)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHH
Confidence            3456677777777777654321   1111           12345556667788888888888888887653 3467788


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          247 NLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       247 n~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      ..+-.+|...|++++|.+.|.+....
T Consensus       102 ~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1         102 YRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            88888888888888888888888764

>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=95.37  E-value=0.21  Score=38.65  Aligned_cols=91  Identities=16%  Similarity=0.100  Sum_probs=59.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCC-CC----------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-----CCCCCH-
Q 047934          216 DGFCKAQKFDDAKRIFRKMQSNGI-AP----------NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA-----GHSPNV-  278 (344)
Q Consensus       216 ~ay~k~g~~e~A~~vf~~M~~~gi-~p----------d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~-----gv~pd~-  278 (344)
                      ..+...|++++|...|++..+..- -|          ....|+.+-.+|.+.|++++|++.+++....     ...++. 
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~   96 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   96 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccccccccccc
Confidence            344566777777777777654210 01          1356778888888888888888888876542     222221 


Q ss_pred             ----HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          279 ----TTFVGLVDGLCRERGVEKAQSVIATLKE  306 (344)
Q Consensus       279 ----~ty~~lL~a~~~~G~~e~a~~l~~~M~~  306 (344)
                          ..|..+-.+|...|++++|.+.|+...+
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                2355566778888999999888887653

>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=95.18  E-value=0.23  Score=38.93  Aligned_cols=93  Identities=17%  Similarity=0.198  Sum_probs=72.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHC--------------CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH
Q 047934          214 VVDGFCKAQKFDDAKRIFRKMQSN--------------GIA-PNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNV  278 (344)
Q Consensus       214 LI~ay~k~g~~e~A~~vf~~M~~~--------------gi~-pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~  278 (344)
                      .-..+.+.|++++|.+.|.+..+.              .+. .+...|..+-.+|.+.|++++|+..+.+..+.. .-+.
T Consensus        33 ~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~  111 (169)
T d1ihga1          33 IGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNT  111 (169)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhh
Confidence            344567788888888888765321              011 134467778888999999999999999988753 3367


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          279 TTFVGLVDGLCRERGVEKAQSVIATLKEK  307 (344)
Q Consensus       279 ~ty~~lL~a~~~~G~~e~a~~l~~~M~~~  307 (344)
                      .+|..+-.++...|++++|.+.|....+.
T Consensus       112 ~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1         112 KALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            88999999999999999999999998875

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.60  E-value=0.61  Score=41.42  Aligned_cols=104  Identities=9%  Similarity=-0.025  Sum_probs=62.9

Q ss_pred             cCCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHH-------------HH-----------c
Q 047934          147 PNRNEPISEPPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLM-------------RE-----------K  202 (344)
Q Consensus       147 ~~~~~~~sg~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M-------------~~-----------~  202 (344)
                      .+..+...|.++.|..+|..+.      ++.-++..|.+.++++.|.+++...             .+           .
T Consensus        20 i~~~c~~~~lye~A~~lY~~~~------d~~rl~~~~v~l~~~~~avd~~~k~~~~~~~k~~~~~l~~~~e~~la~i~~~   93 (336)
T d1b89a_          20 VGDRCYDEKMYDAAKLLYNNVS------NFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGL   93 (336)
T ss_dssp             ---------CTTTHHHHHHHTT------CHHHHHHHHHTTTCHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHTTT
T ss_pred             HHHHHHHCCCHHHHHHHHHhCC------CHHHHHHHHHhhccHHHHHHHHHHcCCHHHHHHHHHHHHhCcHHHHHHHHHH
Confidence            3456667888999999997643      5666677777777777666655422             11           1


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047934          203 GTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKCN  257 (344)
Q Consensus       203 g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g  257 (344)
                      ....+......++..|-..|.+++...+++..... -..+...++-++..|++.+
T Consensus        94 ~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          94 HIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC
T ss_pred             HhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC
Confidence            22335555567777788888888877777765432 2456777888888888764

>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=94.57  E-value=0.17  Score=39.07  Aligned_cols=115  Identities=10%  Similarity=0.041  Sum_probs=66.4

Q ss_pred             HcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047934          185 KDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKA----------QKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLY  254 (344)
Q Consensus       185 k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~----------g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~  254 (344)
                      +.+.+++|++.|+...+.. +-+..++..+=.+|...          +.+++|...|++..+.. +-+..+|..+-.+|.
T Consensus         9 r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHHH
Confidence            3445666666666655542 23444554444444422          33466777777766542 124556666666665


Q ss_pred             HcC-----------CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 047934          255 KCN-----------KLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGF  309 (344)
Q Consensus       255 k~g-----------~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi  309 (344)
                      ..|           .+++|.+.|++..+.  .|+..+|..-|..+      .++.+++.+..+.|+
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHH------HHHHHHHHHHHHHhc
Confidence            543           356677777776654  57766666555444      566777777777664

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.55  E-value=0.14  Score=45.77  Aligned_cols=133  Identities=9%  Similarity=0.029  Sum_probs=89.5

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 047934          177 VAMLDGLCKDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC  256 (344)
Q Consensus       177 ~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~  256 (344)
                      ..+..-|.+.|.++.|..+|..+..         |..++..|.+.++++.|.+++....      +..+|.-+..+|.+.
T Consensus        18 ~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l~~~   82 (336)
T d1b89a_          18 QQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVDG   82 (336)
T ss_dssp             -----------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHHHhC
Confidence            3577777788999999998876532         5667888888888888888876542      777888888888887


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccHHHHHHHHhccCCCChHH
Q 047934          257 NKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVNDKAVREFLDKKAPFSSSV  330 (344)
Q Consensus       257 g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~yak~g~~~  330 (344)
                      .....|.     +.......+......++..|-..|..++...+++..... -..+...++.++..|++.++..
T Consensus        83 ~e~~la~-----i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~~k  150 (336)
T d1b89a_          83 KEFRLAQ-----MCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKPQK  150 (336)
T ss_dssp             TCHHHHH-----HTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCHHH
T ss_pred             cHHHHHH-----HHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhChHH
Confidence            7765542     223334456666678888888888888888888876532 2446667888888888888754

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=94.09  E-value=0.25  Score=38.78  Aligned_cols=98  Identities=17%  Similarity=0.094  Sum_probs=75.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH---CCCCCC-----------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCH
Q 047934          213 AVVDGFCKAQKFDDAKRIFRKMQS---NGIAPN-----------AFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNV  278 (344)
Q Consensus       213 ~LI~ay~k~g~~e~A~~vf~~M~~---~gi~pd-----------~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~  278 (344)
                      -.-..+.+.|++++|...|.....   .....+           ...|+.+-.+|.+.|++++|+..++...... +-+.
T Consensus        20 e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~   98 (168)
T d1kt1a1          20 EKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANE   98 (168)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchH
Confidence            344567789999999999977653   111111           2346667788999999999999999988753 4478


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcccH
Q 047934          279 TTFVGLVDGLCRERGVEKAQSVIATLKEKGFLVND  313 (344)
Q Consensus       279 ~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p~~  313 (344)
                      .+|..+-.++...|++++|.+.|....+.  .|+.
T Consensus        99 ~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n  131 (168)
T d1kt1a1          99 KGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQN  131 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCC
Confidence            88999999999999999999999998875  4443

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=94.08  E-value=0.42  Score=36.77  Aligned_cols=92  Identities=15%  Similarity=0.092  Sum_probs=68.5

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcC-CCC----------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----CCCCC-
Q 047934          180 LDGLCKDGLIQEAMKLFGLMREKG-TIP----------EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSN-----GIAPN-  242 (344)
Q Consensus       180 i~~~~k~g~~~~A~~lf~~M~~~g-~~p----------d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~-----gi~pd-  242 (344)
                      -..+...|++++|++.|.+..+.. -.|          ...+|+.+-.+|.+.|++++|..-+++..+.     ...++ 
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            344567799999999999876531 112          2467889999999999999999998887542     12222 


Q ss_pred             ----HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 047934          243 ----AFSYNLLIQGLYKCNKLEEAVEYCIEMLE  271 (344)
Q Consensus       243 ----~~tyn~LI~ay~k~g~~~~A~~lf~~M~~  271 (344)
                          ...|+.+-.+|.+.|++++|++.|++..+
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                22466778899999999999999998664

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=93.39  E-value=0.08  Score=45.70  Aligned_cols=120  Identities=14%  Similarity=0.019  Sum_probs=74.2

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCC-C-CHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcCCHHHH
Q 047934          151 EPISEPPQEADEIFKKMKETGLI-P-NAVAMLDGLCKDGLIQEAMKLFGLMREKGTIPE-VVIYTAVVDGFCKAQKFDDA  227 (344)
Q Consensus       151 ~~~sg~~~~A~~lf~~M~~~gi~-p-~~~tli~~~~k~g~~~~A~~lf~~M~~~g~~pd-~~tyn~LI~ay~k~g~~e~A  227 (344)
                      ....|++++|+..+++..+..=. + -+..+...|+..|++++|.+.|+...+..  |+ ...+..+-..+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~--P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhccccHHH
Confidence            34578999999999998875421 1 12368999999999999999999987752  33 34444443333322222222


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          228 KRIFRKMQSNGIAPNAFSYNLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       228 ~~vf~~M~~~gi~pd~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      ..-...-...+-.++...+......+.+.|+.++|.+++++..+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            111100000111122344445566778899999999999988764

>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=92.31  E-value=1.5  Score=32.43  Aligned_cols=46  Identities=11%  Similarity=-0.020  Sum_probs=23.8

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Q 047934          156 PPQEADEIFKKMKETGLIPNAVAMLDGLCKDGLIQEAMKLFGLMREKG  203 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p~~~tli~~~~k~g~~~~A~~lf~~M~~~g  203 (344)
                      ++++|++.|.+..+.|.......|  +.....+.++|+++|+...+.|
T Consensus         8 d~~~A~~~~~kaa~~g~~~a~~~l--~~~~~~~~~~a~~~~~~aa~~g   53 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEMFGCLSL--VSNSQINKQKLFQYLSKACELN   53 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCTTHHHHH--HTCTTSCHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCCChhhhhhh--ccccccCHHHHHHHHhhhhccc
Confidence            466777777777666644222222  1222335555655555555444

>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=91.58  E-value=1.6  Score=37.31  Aligned_cols=137  Identities=7%  Similarity=0.034  Sum_probs=93.0

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHH-------HHHHHH-------HcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 047934          156 PPQEADEIFKKMKETGLIPNAVA-------MLDGLC-------KDGLIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKA  221 (344)
Q Consensus       156 ~~~~A~~lf~~M~~~gi~p~~~t-------li~~~~-------k~g~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~  221 (344)
                      ..++|+++++...+.+  |+..+       ++..+.       ..|.+++|+.+++...+.. +-+...|..+-.++...
T Consensus        44 ~~~~al~~~~~~l~~~--P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~  120 (334)
T d1dcea1          44 LDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (334)
T ss_dssp             CSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             ccHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHh
Confidence            3579999999887643  44321       233333       3445788999998887653 33667777777777766


Q ss_pred             CC--HHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047934          222 QK--FDDAKRIFRKMQSNGIAPNAFSYNLLI-QGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKA  297 (344)
Q Consensus       222 g~--~e~A~~vf~~M~~~gi~pd~~tyn~LI-~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a  297 (344)
                      +.  +++|...+..+.+.. ..+...|..++ ..+...+..++|+..++....... -+...|..+-..+...|+.++|
T Consensus       121 ~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~A  197 (334)
T d1dcea1         121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDS  197 (334)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCS
T ss_pred             ccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHHH
Confidence            64  789999999987752 23466665444 566668999999999988766532 3677787777777777765443

>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=90.20  E-value=2.8  Score=35.54  Aligned_cols=126  Identities=10%  Similarity=0.056  Sum_probs=83.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCCH-HHHHHH---HHH-------HHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREKGTIPEV-VIYTAV---VDG-------FCKAQKFDDAKRIFRKMQSNGIAPNAFSYN  247 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~g~~pd~-~tyn~L---I~a-------y~k~g~~e~A~~vf~~M~~~gi~pd~~tyn  247 (344)
                      ++...-+....++|++++....+.  .|+. ..|+..   +..       +...|.+++|+.+++...+.. .-+...|.
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~  111 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWH  111 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHH
Confidence            333333334458999999988764  3543 344332   222       233445788999999987753 23677788


Q ss_pred             HHHHHHHHcC--CHHHHHHHHHHHHHcCCCCCHHHHHH-HHHHHHHcCCHHHHHHHHHHHHHCC
Q 047934          248 LLIQGLYKCN--KLEEAVEYCIEMLEAGHSPNVTTFVG-LVDGLCRERGVEKAQSVIATLKEKG  308 (344)
Q Consensus       248 ~LI~ay~k~g--~~~~A~~lf~~M~~~gv~pd~~ty~~-lL~a~~~~G~~e~a~~l~~~M~~~G  308 (344)
                      .+..++...+  ++++|...+.++.+.. ..+...+.. .-..+...+..++|...++.+.+..
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~  174 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN  174 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC
Confidence            7777777765  4899999999988763 224555443 3356667899999999998877664

>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=89.73  E-value=3.2  Score=31.53  Aligned_cols=69  Identities=17%  Similarity=0.120  Sum_probs=57.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCcc
Q 047934          242 NAFSYNLLIQGLYKCNKLEEAVEYCIEMLEAGHSPNVTTFVGLVDGLCRERGVEKAQSVIATLKEKGFLV  311 (344)
Q Consensus       242 d~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a~~~~G~~e~a~~l~~~M~~~Gi~p  311 (344)
                      +.......++.+.+.|.-|.-.++...+.+ .-+++......+-.||.+.|...++.+++.+.-++|++-
T Consensus        85 ~se~vdlALd~lv~~~kkd~Ld~i~~~l~k-n~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~Ke  153 (161)
T d1wy6a1          85 LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEKE  153 (161)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHh-cCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHHH
Confidence            344567778888899999999999888766 447888888999999999999999999999999999873

>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=89.04  E-value=3.2  Score=30.53  Aligned_cols=112  Identities=10%  Similarity=-0.022  Sum_probs=79.1

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHH
Q 047934          188 LIQEAMKLFGLMREKGTIPEVVIYTAVVDGFCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK----CNKLEEAV  263 (344)
Q Consensus       188 ~~~~A~~lf~~M~~~g~~pd~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k----~g~~~~A~  263 (344)
                      +.++|+++|....+.|..   ..+-.|.  .....+.++|.+.|++..+.|   +...+..|=..|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            578899999988887732   2233332  234467899999999988877   56666655555554    45689999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCc
Q 047934          264 EYCIEMLEAGHSPNVTTFVGLVDGLCR----ERGVEKAQSVIATLKEKGFL  310 (344)
Q Consensus       264 ~lf~~M~~~gv~pd~~ty~~lL~a~~~----~G~~e~a~~l~~~M~~~Gi~  310 (344)
                      ++|++-.+.|   +......|-..|..    ..+.++|.+++....+.|..
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCCH
Confidence            9999988877   45555555455544    45889999999988887754

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.25  E-value=2  Score=29.80  Aligned_cols=59  Identities=8%  Similarity=0.023  Sum_probs=36.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc---C--CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 047934          179 MLDGLCKDGLIQEAMKLFGLMREK---G--TIP-EVVIYTAVVDGFCKAQKFDDAKRIFRKMQSN  237 (344)
Q Consensus       179 li~~~~k~g~~~~A~~lf~~M~~~---g--~~p-d~~tyn~LI~ay~k~g~~e~A~~vf~~M~~~  237 (344)
                      +=..+.+.|++++|...|++..+.   .  ..+ ...+++.|-.+|.+.|++++|...+++..+.
T Consensus        11 lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_          11 LGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            344566777777777777765432   1  111 2456666777777777777777777776654

>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=86.64  E-value=6.8  Score=31.60  Aligned_cols=98  Identities=11%  Similarity=-0.073  Sum_probs=44.2

Q ss_pred             CHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCCH
Q 047934          207 EVVIYTAVVDGFCK----AQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYK----CNKLEEAVEYCIEMLEAGHSPNV  278 (344)
Q Consensus       207 d~~tyn~LI~ay~k----~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k----~g~~~~A~~lf~~M~~~gv~pd~  278 (344)
                      +...+..|-..|..    ..+...+...++...+.|   +...+..|=..|..    ..+.++|...|..-.+.|   +.
T Consensus       141 ~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~  214 (265)
T d1ouva_         141 DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NG  214 (265)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             ccchhhhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CH
Confidence            33444444444443    233444555555444443   33333333333333    345555565555555554   33


Q ss_pred             HHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCc
Q 047934          279 TTFVGLVDGLCR----ERGVEKAQSVIATLKEKGFL  310 (344)
Q Consensus       279 ~ty~~lL~a~~~----~G~~e~a~~l~~~M~~~Gi~  310 (344)
                      ..+..|-..|.+    ..+.++|.+.|+...+.|-.
T Consensus       215 ~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         215 GGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            333333333332    22455555555555555543

>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=85.59  E-value=1.3  Score=33.63  Aligned_cols=103  Identities=11%  Similarity=0.006  Sum_probs=69.8

Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc----------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 047934          218 FCKAQKFDDAKRIFRKMQSNGIAPNAFSYNLLIQGLYKC----------NKLEEAVEYCIEMLEAGHSPNVTTFVGLVDG  287 (344)
Q Consensus       218 y~k~g~~e~A~~vf~~M~~~gi~pd~~tyn~LI~ay~k~----------g~~~~A~~lf~~M~~~gv~pd~~ty~~lL~a  287 (344)
                      |-+.+.+++|+..|+...+.. +-+...|..+=.+|...          +.+++|+..|++..+.. +-+..+|..+-.+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            445667999999999988763 33566676666666543          44578899998887652 2357788877777


Q ss_pred             HHHcCC-----------HHHHHHHHHHHHHCCCcccHHHHHHHHhccC
Q 047934          288 LCRERG-----------VEKAQSVIATLKEKGFLVNDKAVREFLDKKA  324 (344)
Q Consensus       288 ~~~~G~-----------~e~a~~l~~~M~~~Gi~p~~~~~~~Ll~~ya  324 (344)
                      |...|.           +++|.+.|+...+  +.|+...+..-+..+.
T Consensus        85 y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~~  130 (145)
T d1zu2a1          85 YTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMTA  130 (145)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             HHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHHH
Confidence            766543           4667777776664  4677777766665543

>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=85.11  E-value=3.5  Score=28.48  Aligned_cols=60  Identities=10%  Similarity=0.089  Sum_probs=36.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC-----CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 047934          213 AVVDGFCKAQKFDDAKRIFRKMQSN-----GIAPN-AFSYNLLIQGLYKCNKLEEAVEYCIEMLEA  272 (344)
Q Consensus       213 ~LI~ay~k~g~~e~A~~vf~~M~~~-----gi~pd-~~tyn~LI~ay~k~g~~~~A~~lf~~M~~~  272 (344)
                      -+=..+.+.|++++|...|++..+.     ...++ ..+++.|-.+|.+.|++++|++.+++..+.
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3445566667777777777665432     11112 345666666777777777777777776665