Citrus Sinensis ID: 044352

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540----
Protein Sequence
MNRLIFPINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRNEFVEKEVQNESKA
Secondary Structure (PSIPRED)
ccccccccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHcccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHcccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHcHHHccccccccHHHHHHHHHcccccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccccccccEEEEccEEEEEEccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccHHHHHHHHHHccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEEEEEccEEEEEEEcccccc
Coil and Loop (DISEMBL)
mnrlifpinnlsVNYLDCLLGkcmkskalrqGKQVHALLCTNDLNIFSLKSKLVgvyagcgdvnsarlvfdkipnpnvfMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGlldikkgkQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMkleglepnqftYNAIIASYarrgdsnaaFAFFSRmtaegfvpdlVTWNAMISGFAQSKRENEALKLFKGMLvsgikpnnvTVTGVLqaggltgsiqIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGcygkhgmvdSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERygvkiskeHYACVVDMLCRSGRMVEAYDLLRQVPMYvtnsmagafrngcnihgrrDLAVTMGEEFFemglrkpdgfVMLSNIcaadgewhEAENLRKIMKEknvqkqpgfsrveKRNEFVEKEVQNESKA
Flexible Loop (DISEMBL)
mnrlifpinnlsVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMkleglepnqFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERygvkiskehyACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMkeknvqkqpgfsrvekrnefvekevqneska
Low Complexity Region (SEG)
MNRLIFPINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRNEFVEKEVQNESKA
Disordered region (IsUnstruct)
***LIFPINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAEN************************************
Disordered Region (DISOPRED)
*************NYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRNEFVEKEVQ*****
Disordered Region (DISEMBL)
MNRLIFPINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRNEFV**********
Disordered Region (DISPRO)
*******INNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRNEFVEKEVQN****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNRLIFPINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRNEFVEKEVQNESKA
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	544	2.2.26 [Sep-21-2011]
Q3E6Q1	809	Pentatricopeptide repeat-	no	no	0.935	0.629	0.352	1e-89
P0C899	686	Putative pentatricopeptid	yes	no	0.930	0.737	0.346	5e-88
Q9ZQ74	689	Pentatricopeptide repeat-	no	no	0.922	0.728	0.337	1e-84
Q9FGR2	534	Pentatricopeptide repeat-	no	no	0.869	0.885	0.350	1e-84
Q7Y211	890	Pentatricopeptide repeat-	no	no	0.930	0.568	0.343	1e-82
Q9S7F4	825	Putative pentatricopeptid	no	no	0.930	0.613	0.327	2e-82
Q9LTV8	694	Pentatricopeptide repeat-	no	no	0.930	0.729	0.337	7e-82
Q9SS83	1028	Pentatricopeptide repeat-	no	no	0.941	0.498	0.317	6e-81
Q9LS72	600	Pentatricopeptide repeat-	no	no	0.944	0.856	0.323	2e-80
Q9SVP7	1064	Pentatricopeptide repeat-	no	no	0.941	0.481	0.318	3e-80

>sp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290 OS=Arabidopsis thaliana GN=PCMP-H40 PE=2 SV=1

 Score =  330 bits (847), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 194/551 (35%), Positives = 296/551 (53%), Gaps = 42/551 (7%)

Query: 19  LLGKCMKSKALRQGKQVHALLCTN--DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNP 76
           LL  C     LR GK++H LL  +   L++F++ + L  +YA C  VN AR VFD++P  
Sbjct: 141 LLKVCGDEAELRVGKEIHGLLVKSGFSLDLFAM-TGLENMYAKCRQVNEARKVFDRMPER 199

Query: 77  NVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVH 136
           ++   N +V   +  G  + A+     M E   + +  T   VL A   L  I  GK++H
Sbjct: 200 DLVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVSVLPAVSALRLISVGKEIH 259

Query: 137 AVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVD 196
             A + GF++ V++  AL+DMY+KCG L +AR++F GM ER+VVSW SMI  Y       
Sbjct: 260 GYAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQNENPK 319

Query: 197 EAVVLFERMKLEGLEP-----------------------------------NQFTYNAII 221
           EA+++F++M  EG++P                                   N    N++I
Sbjct: 320 EAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSVVNSLI 379

Query: 222 ASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIK 281
           + Y +  + + A + F ++ +      LV+WNAMI GFAQ+ R  +AL  F  M    +K
Sbjct: 380 SMYCKCKEVDTAASMFGKLQSR----TLVSWNAMILGFAQNGRPIDALNYFSQMRSRTVK 435

Query: 282 PNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTL 341
           P+  T   V+ A          + IH +V R  L  +VF  +AL+DMY+KCG++  AR +
Sbjct: 436 PDTFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIMIARLI 495

Query: 342 FEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLV 401
           F++   ++V +WNAMI  YG HG   +++ELFE M +  ++ N VT +SV+SACSH GLV
Sbjct: 496 FDMMSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACSHSGLV 555

Query: 402 EKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRN 461
           E GL+ F  MKE Y +++S +HY  +VD+L R+GR+ EA+D + Q+P+    ++ GA   
Sbjct: 556 EAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGAMLG 615

Query: 462 GCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQ 521
            C IH   + A    E  FE+        V+L+NI  A   W +   +R  M  + ++K 
Sbjct: 616 ACQIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGLRKT 675

Query: 522 PGFSRVEKRNE 532
           PG S VE +NE
Sbjct: 676 PGCSMVEIKNE 686

Arabidopsis thaliana (taxid: 3702)

>sp|P0C899|PP271_ARATH Putative pentatricopeptide repeat-containing protein At3g49142 OS=Arabidopsis thaliana GN=PCMP-H77 PE=3 SV=1

 Score =  325 bits (834), Expect = 5e-88,   Method: Compositional matrix adjust.
 Identities = 178/514 (34%), Positives = 284/514 (55%), Gaps = 8/514 (1%)

Query: 19  LLGKCMKS-KALRQGKQVHALLCTNDLNI-FSLKSKLVGVYAGCGDVNSARLVFDKIPNP 76
           LLG+ + +   +R  + VH+ +   DL    SL  KL+  YA   DV SAR VFD+IP  
Sbjct: 44  LLGQVLDTYPDIRTLRTVHSRIILEDLRCNSSLGVKLMRAYASLKDVASARKVFDEIPER 103

Query: 77  NVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVH 136
           NV ++N M+ +    G + E +  F  M     R + +TF  VLKAC     I  G+++H
Sbjct: 104 NVIIINVMIRSYVNNGFYGEGVKVFGTMCGCNVRPDHYTFPCVLKACSCSGTIVIGRKIH 163

Query: 137 AVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVD 196
             AT++G  + + VGN L+ MY KCG L  AR V   M  RDVVSW S++ GY    + D
Sbjct: 164 GSATKVGLSSTLFVGNGLVSMYGKCGFLSEARLVLDEMSRRDVVSWNSLVVGYAQNQRFD 223

Query: 197 EAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFA--FFSRMTAEGFVPDLVTWNA 254
           +A+ +   M+   +  +  T  +++ + +     N  +    F +M  +     LV+WN 
Sbjct: 224 DALEVCREMESVKISHDAGTMASLLPAVSNTTTENVMYVKDMFFKMGKKS----LVSWNV 279

Query: 255 MISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMG 314
           MI  + ++    EA++L+  M   G +P+ V++T VL A G T ++ +G++IH  + R  
Sbjct: 280 MIGVYMKNAMPVEAVELYSRMEADGFEPDAVSITSVLPACGDTSALSLGKKIHGYIERKK 339

Query: 315 LHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFE 374
           L  ++   +ALIDMY+KCG L+ AR +FE  + ++V SW AMI  YG  G    ++ LF 
Sbjct: 340 LIPNLLLENALIDMYAKCGCLEKARDVFENMKSRDVVSWTAMISAYGFSGRGCDAVALFS 399

Query: 375 RMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRS 434
           ++ + G+  + +  ++ L+ACSH GL+E+G   F+ M + Y +    EH AC+VD+L R+
Sbjct: 400 KLQDSGLVPDSIAFVTTLAACSHAGLLEEGRSCFKLMTDHYKITPRLEHLACMVDLLGRA 459

Query: 435 GRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLS 494
           G++ EAY  ++ + M     + GA    C +H   D+ +   ++ F++   +   +V+LS
Sbjct: 460 GKVKEAYRFIQDMSMEPNERVWGALLGACRVHSDTDIGLLAADKLFQLAPEQSGYYVLLS 519

Query: 495 NICAADGEWHEAENLRKIMKEKNVQKQPGFSRVE 528
           NI A  G W E  N+R IMK K ++K PG S VE
Sbjct: 520 NIYAKAGRWEEVTNIRNIMKSKGLKKNPGASNVE 553

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZQ74|PP146_ARATH Pentatricopeptide repeat-containing protein At2g03380, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E47 PE=3 SV=1

 Score =  314 bits (804), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 185/548 (33%), Positives = 293/548 (53%), Gaps = 46/548 (8%)

Query: 20  LGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVF 79
           L  C + + L  GK++H  L         + + L+ +YA CG++ SA  VF+ I   NV 
Sbjct: 149 LKACTELQDLDNGKKIHCQLVKVPSFDNVVLTGLLDMYAKCGEIKSAHKVFNDITLRNV- 207

Query: 80  MLNWMVMASAFTGN--FQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHA 137
            + W  M + +  N   +E +  F+ MRE     N++T+  ++ AC  L  + +GK  H 
Sbjct: 208 -VCWTSMIAGYVKNDLCEEGLVLFNRMRENNVLGNEYTYGTLIMACTKLSALHQGKWFHG 266

Query: 138 VATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDE 197
              + G E    +  +L+DMY KCG + +ARRVF+     D+V WT+MI GY +   V+E
Sbjct: 267 CLVKSGIELSSCLVTSLLDMYVKCGDISNARRVFNEHSHVDLVMWTAMIVGYTHNGSVNE 326

Query: 198 AVVLFERMKLEGLEPNQFTY----------------------------------NAIIAS 223
           A+ LF++MK   ++PN  T                                   NA++  
Sbjct: 327 ALSLFQKMKGVEIKPNCVTIASVLSGCGLIENLELGRSVHGLSIKVGIWDTNVANALVHM 386

Query: 224 YAR-RGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKP 282
           YA+   + +A + F   M +E    D+V WN++ISGF+Q+   +EAL LF  M    + P
Sbjct: 387 YAKCYQNRDAKYVF--EMESE---KDIVAWNSIISGFSQNGSIHEALFLFHRMNSESVTP 441

Query: 283 NNVTVTGVLQAGGLTGSIQIGREIHALVCRMGL--HIDVFTGSALIDMYSKCGSLKDART 340
           N VTV  +  A    GS+ +G  +HA   ++G      V  G+AL+D Y+KCG  + AR 
Sbjct: 442 NGVTVASLFSACASLGSLAVGSSLHAYSVKLGFLASSSVHVGTALLDFYAKCGDPQSARL 501

Query: 341 LFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGL 400
           +F+    KN  +W+AMIG YGK G    S+ELFE ML++  + NE T  S+LSAC H G+
Sbjct: 502 IFDTIEEKNTITWSAMIGGYGKQGDTIGSLELFEEMLKKQQKPNESTFTSILSACGHTGM 561

Query: 401 VEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFR 460
           V +G + F SM + Y    S +HY C+VDML R+G + +A D++ ++P+       GAF 
Sbjct: 562 VNEGKKYFSSMYKDYNFTPSTKHYTCMVDMLARAGELEQALDIIEKMPIQPDVRCFGAFL 621

Query: 461 NGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQK 520
           +GC +H R DL   + ++  ++       +V++SN+ A+DG W++A+ +R +MK++ + K
Sbjct: 622 HGCGMHSRFDLGEIVIKKMLDLHPDDASYYVLVSNLYASDGRWNQAKEVRNLMKQRGLSK 681

Query: 521 QPGFSRVE 528
             G S +E
Sbjct: 682 IAGHSTME 689

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FGR2|PP436_ARATH Pentatricopeptide repeat-containing protein At5g59600 OS=Arabidopsis thaliana GN=PCMP-E1 PE=2 SV=1

 Score =  313 bits (803), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 166/474 (35%), Positives = 273/474 (57%), Gaps = 1/474 (0%)

Query: 31  QGKQVHALLCTNDL-NIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASA 89
           +G+ +HA L T+ +  +  + +KLV  Y  CG V  AR VFD++P  ++     M+ A A
Sbjct: 34  RGRVLHAHLVTSGIARLTRIAAKLVTFYVECGKVLDARKVFDEMPKRDISGCVVMIGACA 93

Query: 90  FTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVS 149
             G +QE++ +F  M +   + + F    +LKA   LLD + GK +H +  +  +E+D  
Sbjct: 94  RNGYYQESLDFFREMYKDGLKLDAFIVPSLLKASRNLLDREFGKMIHCLVLKFSYESDAF 153

Query: 150 VGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEG 209
           + ++LIDMYSK G + +AR+VF  + E+D+V + +MISGY N S+ DEA+ L + MKL G
Sbjct: 154 IVSSLIDMYSKFGEVGNARKVFSDLGEQDLVVFNAMISGYANNSQADEALNLVKDMKLLG 213

Query: 210 LEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEAL 269
           ++P+  T+NA+I+ ++   +          M  +G+ PD+V+W ++ISG   + +  +A 
Sbjct: 214 IKPDVITWNALISGFSHMRNEEKVSEILELMCLDGYKPDVVSWTSIISGLVHNFQNEKAF 273

Query: 270 KLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMY 329
             FK ML  G+ PN+ T+  +L A      ++ G+EIH      GL    F  SAL+DMY
Sbjct: 274 DAFKQMLTHGLYPNSATIITLLPACTTLAYMKHGKEIHGYSVVTGLEDHGFVRSALLDMY 333

Query: 330 SKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLI 389
            KCG + +A  LF  T  K   ++N+MI CY  HG+ D ++ELF++M   G + + +T  
Sbjct: 334 GKCGFISEAMILFRKTPKKTTVTFNSMIFCYANHGLADKAVELFDQMEATGEKLDHLTFT 393

Query: 390 SVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPM 449
           ++L+ACSH GL + G  +F  M+ +Y +    EHYAC+VD+L R+G++VEAY++++ + M
Sbjct: 394 AILTACSHAGLTDLGQNLFLLMQNKYRIVPRLEHYACMVDLLGRAGKLVEAYEMIKAMRM 453

Query: 450 YVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEW 503
                + GA    C  HG  +LA    +   E+        ++L+++ A  G W
Sbjct: 454 EPDLFVWGALLAACRNHGNMELARIAAKHLAELEPENSGNGLLLTSLYANAGSW 507

Arabidopsis thaliana (taxid: 3702)

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

 Score =  308 bits (788), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 196/570 (34%), Positives = 300/570 (52%), Gaps = 64/570 (11%)

Query: 27  KALRQGKQVHAL-LCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMV 85
           + L  GKQVHA  L   +LN F + + LV +Y   G + S++++       +  ++ W  
Sbjct: 216 EGLMMGKQVHAYGLRKGELNSFIINT-LVAMYGKLGKLASSKVLLGSFGGRD--LVTWNT 272

Query: 86  MASAFTGNFQ--EAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMG 143
           + S+   N Q  EA+ Y   M       ++FT S VL AC  L  ++ GK++HA A + G
Sbjct: 273 VLSSLCQNEQLLEALEYLREMVLEGVEPDEFTISSVLPACSHLEMLRTGKELHAYALKNG 332

Query: 144 -FENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLF 202
             + +  VG+AL+DMY  C  + S RRVF GMF+R +  W +MI+GY       EA++LF
Sbjct: 333 SLDENSFVGSALVDMYCNCKQVLSGRRVFDGMFDRKIGLWNAMIAGYSQNEHDKEALLLF 392

Query: 203 ERMK------------------------------------LEGLEPNQFTYNAIIASYAR 226
             M+                                      GL+ ++F  N ++  Y+R
Sbjct: 393 IGMEESAGLLANSTTMAGVVPACVRSGAFSRKEAIHGFVVKRGLDRDRFVQNTLMDMYSR 452

Query: 227 RGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEAL-----------KLFKGM 275
            G  + A   F +M       DLVTWN MI+G+  S+   +AL           K+ KG 
Sbjct: 453 LGKIDIAMRIFGKMEDR----DLVTWNTMITGYVFSEHHEDALLLLHKMQNLERKVSKGA 508

Query: 276 LVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSL 335
               +KPN++T+  +L +     ++  G+EIHA   +  L  DV  GSAL+DMY+KCG L
Sbjct: 509 SRVSLKPNSITLMTILPSCAALSALAKGKEIHAYAIKNNLATDVAVGSALVDMYAKCGCL 568

Query: 336 KDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSAC 395
           + +R +F+    KNV +WN +I  YG HG    +I+L   M+ +G++ NEVT ISV +AC
Sbjct: 569 QMSRKVFDQIPQKNVITWNVIIMAYGMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAAC 628

Query: 396 SHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSM 455
           SH G+V++GL IF  MK  YGV+ S +HYACVVD+L R+GR+ EAY L+  +P       
Sbjct: 629 SHSGMVDEGLRIFYVMKPDYGVEPSSDHYACVVDLLGRAGRIKEAYQLMNMMPRDFNK-- 686

Query: 456 AGAFRN---GCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKI 512
           AGA+ +      IH   ++     +   ++       +V+L+NI ++ G W +A  +R+ 
Sbjct: 687 AGAWSSLLGASRIHNNLEIGEIAAQNLIQLEPNVASHYVLLANIYSSAGLWDKATEVRRN 746

Query: 513 MKEKNVQKQPGFSRVEKRNEFVEKEVQNES 542
           MKE+ V+K+PG S +E  +E V K V  +S
Sbjct: 747 MKEQGVRKEPGCSWIEHGDE-VHKFVAGDS 775

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S7F4|PP206_ARATH Putative pentatricopeptide repeat-containing protein At2g01510 OS=Arabidopsis thaliana GN=PCMP-H36 PE=3 SV=1

 Score =  306 bits (785), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 180/549 (32%), Positives = 283/549 (51%), Gaps = 43/549 (7%)

Query: 19  LLGKCMKSKALRQGKQVHALLCT--NDLNIF-SLKSKLVGVYAGCGDVNSARLVFDKIPN 75
           LL  C  +       QVHA       D N F ++ + L+  Y     ++ A ++F++IP 
Sbjct: 153 LLPGCNDAVPQNAVGQVHAFAVKLGFDTNPFLTVSNVLLKSYCEVRRLDLACVLFEEIPE 212

Query: 76  PNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQV 135
            +    N ++      G + E+I  F  MR+  ++ + FTFS VLKA VGL D   G+Q+
Sbjct: 213 KDSVTFNTLITGYEKDGLYTESIHLFLKMRQSGHQPSDFTFSGVLKAVVGLHDFALGQQL 272

Query: 136 HAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKV 195
           HA++   GF  D SVGN ++D YSK   +   R +F  M E D VS+  +IS Y    + 
Sbjct: 273 HALSVTTGFSRDASVGNQILDFYSKHDRVLETRMLFDEMPELDFVSYNVVISSYSQADQY 332

Query: 196 DEAVVLFERMKLEGLEPNQFTY-----------------------------------NAI 220
           + ++  F  M+  G +   F +                                   N++
Sbjct: 333 EASLHFFREMQCMGFDRRNFPFATMLSIAANLSSLQMGRQLHCQALLATADSILHVGNSL 392

Query: 221 IASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGI 280
           +  YA+      A   F  +         V+W A+ISG+ Q       LKLF  M  S +
Sbjct: 393 VDMYAKCEMFEEAELIFKSLPQRT----TVSWTALISGYVQKGLHGAGLKLFTKMRGSNL 448

Query: 281 KPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDART 340
           + +  T   VL+A     S+ +G+++HA + R G   +VF+GS L+DMY+KCGS+KDA  
Sbjct: 449 RADQSTFATVLKASASFASLLLGKQLHAFIIRSGNLENVFSGSGLVDMYAKCGSIKDAVQ 508

Query: 341 LFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGL 400
           +FE    +N  SWNA+I  +  +G  +++I  F +M+E G++ + V+++ VL+ACSH G 
Sbjct: 509 VFEEMPDRNAVSWNALISAHADNGDGEAAIGAFAKMIESGLQPDSVSILGVLTACSHCGF 568

Query: 401 VEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFR 460
           VE+G E F++M   YG+   K+HYAC++D+L R+GR  EA  L+ ++P      M  +  
Sbjct: 569 VEQGTEYFQAMSPIYGITPKKKHYACMLDLLGRNGRFAEAEKLMDEMPFEPDEIMWSSVL 628

Query: 461 NGCNIHGRRDLAVTMGEEFFEM-GLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQ 519
           N C IH  + LA    E+ F M  LR    +V +SNI AA GEW +  +++K M+E+ ++
Sbjct: 629 NACRIHKNQSLAERAAEKLFSMEKLRDAAAYVSMSNIYAAAGEWEKVRDVKKAMRERGIK 688

Query: 520 KQPGFSRVE 528
           K P +S VE
Sbjct: 689 KVPAYSWVE 697

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LTV8|PP224_ARATH Pentatricopeptide repeat-containing protein At3g12770 OS=Arabidopsis thaliana GN=PCMP-H43 PE=2 SV=1

 Score =  305 bits (781), Expect = 7e-82,   Method: Compositional matrix adjust.
 Identities = 186/551 (33%), Positives = 293/551 (53%), Gaps = 45/551 (8%)

Query: 31  QGKQVHALLCTNDLNIFS--LKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMAS 88
           Q KQ+HA L    L  FS  L +KL+   +  GD+  AR VFD +P P +F  N ++   
Sbjct: 36  QLKQIHARLLVLGLQ-FSGFLITKLIHASSSFGDITFARQVFDDLPRPQIFPWNAIIRGY 94

Query: 89  AFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDV 148
           +   +FQ+A+  +S M+      + FTF  +LKAC GL  ++ G+ VHA   ++GF+ DV
Sbjct: 95  SRNNHFQDALLMYSNMQLARVSPDSFTFPHLLKACSGLSHLQMGRFVHAQVFRLGFDADV 154

Query: 149 SVGNALIDMYSKCGLLCSARRVFHG--MFERDVVSWTSMISGYCNVSKVDEAVVLFERMK 206
            V N LI +Y+KC  L SAR VF G  + ER +VSWT+++S Y    +  EA+ +F +M+
Sbjct: 155 FVQNGLIALYAKCRRLGSARTVFEGLPLPERTIVSWTAIVSAYAQNGEPMEALEIFSQMR 214

Query: 207 LEGLEP---------NQFTY-------NAIIAS-------------------YARRGDSN 231
              ++P         N FT         +I AS                   YA+ G   
Sbjct: 215 KMDVKPDWVALVSVLNAFTCLQDLKQGRSIHASVVKMGLEIEPDLLISLNTMYAKCGQVA 274

Query: 232 AAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVL 291
            A   F +M +    P+L+ WNAMISG+A++    EA+ +F  M+   ++P+ +++T  +
Sbjct: 275 TAKILFDKMKS----PNLILWNAMISGYAKNGYAREAIDMFHEMINKDVRPDTISITSAI 330

Query: 292 QAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVA 351
            A    GS++  R ++  V R     DVF  SALIDM++KCGS++ AR +F+ T  ++V 
Sbjct: 331 SACAQVGSLEQARSMYEYVGRSDYRDDVFISSALIDMFAKCGSVEGARLVFDRTLDRDVV 390

Query: 352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSM 411
            W+AMI  YG HG    +I L+  M   G+  N+VT + +L AC+H G+V +G   F  M
Sbjct: 391 VWSAMIVGYGLHGRAREAISLYRAMERGGVHPNDVTFLGLLMACNHSGMVREGWWFFNRM 450

Query: 412 KERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDL 471
            + + +   ++HYACV+D+L R+G + +AY++++ +P+    ++ GA  + C  H   +L
Sbjct: 451 AD-HKINPQQQHYACVIDLLGRAGHLDQAYEVIKCMPVQPGVTVWGALLSACKKHRHVEL 509

Query: 472 AVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRN 531
                ++ F +       +V LSN+ AA   W     +R  MKEK + K  G S VE R 
Sbjct: 510 GEYAAQQLFSIDPSNTGHYVQLSNLYAAARLWDRVAEVRVRMKEKGLNKDVGCSWVEVRG 569

Query: 532 EFVEKEVQNES 542
                 V ++S
Sbjct: 570 RLEAFRVGDKS 580

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SS83|PP220_ARATH Pentatricopeptide repeat-containing protein At3g09040, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E88 PE=2 SV=1

 Score =  301 bits (772), Expect = 6e-81,   Method: Compositional matrix adjust.
 Identities = 175/552 (31%), Positives = 287/552 (51%), Gaps = 40/552 (7%)

Query: 19  LLGKCMKSKALRQGKQVHALLCTNDL--NIFSLKSKLVGVYAGCGDVNSARLVFDKIPNP 76
           LL  C  S  L  G Q H+++    L  N+F + + LV +YA CG +  AR +F+++ + 
Sbjct: 434 LLSTCAASHDLEMGSQFHSIIIKKKLAKNLF-VGNALVDMYAKCGALEDARQIFERMCDR 492

Query: 77  NVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVH 136
           +    N ++ +     N  EA   F  M       +    +  LKAC  +  + +GKQVH
Sbjct: 493 DNVTWNTIIGSYVQDENESEAFDLFKRMNLCGIVSDGACLASTLKACTHVHGLYQGKQVH 552

Query: 137 AVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVD 196
            ++ + G + D+  G++LIDMYSKCG++  AR+VF  + E  VVS  ++I+GY   + ++
Sbjct: 553 CLSVKCGLDRDLHTGSSLIDMYSKCGIIKDARKVFSSLPEWSVVSMNALIAGYSQ-NNLE 611

Query: 197 EAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPD-------- 248
           EAVVLF+ M   G+ P++ T+  I+ +  +         F  ++T  GF  +        
Sbjct: 612 EAVVLFQEMLTRGVNPSEITFATIVEACHKPESLTLGTQFHGQITKRGFSSEGEYLGISL 671

Query: 249 -------------------------LVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPN 283
                                    +V W  M+SG +Q+    EALK +K M   G+ P+
Sbjct: 672 LGMYMNSRGMTEACALFSELSSPKSIVLWTGMMSGHSQNGFYEEALKFYKEMRHDGVLPD 731

Query: 284 NVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLF- 342
             T   VL+   +  S++ GR IH+L+  +   +D  T + LIDMY+KCG +K +  +F 
Sbjct: 732 QATFVTVLRVCSVLSSLREGRAIHSLIFHLAHDLDELTSNTLIDMYAKCGDMKGSSQVFD 791

Query: 343 EITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVE 402
           E+ R  NV SWN++I  Y K+G  + ++++F+ M +  +  +E+T + VL+ACSH G V 
Sbjct: 792 EMRRRSNVVSWNSLINGYAKNGYAEDALKIFDSMRQSHIMPDEITFLGVLTACSHAGKVS 851

Query: 403 KGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNG 462
            G +IF  M  +YG++   +H AC+VD+L R G + EA D +    +     +  +    
Sbjct: 852 DGRKIFEMMIGQYGIEARVDHVACMVDLLGRWGYLQEADDFIEAQNLKPDARLWSSLLGA 911

Query: 463 CNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQP 522
           C IHG         E+  E+  +    +V+LSNI A+ G W +A  LRK+M+++ V+K P
Sbjct: 912 CRIHGDDIRGEISAEKLIELEPQNSSAYVLLSNIYASQGCWEKANALRKVMRDRGVKKVP 971

Query: 523 GFS--RVEKRNE 532
           G+S   VE+R  
Sbjct: 972 GYSWIDVEQRTH 983

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LS72|PP261_ARATH Pentatricopeptide repeat-containing protein At3g29230 OS=Arabidopsis thaliana GN=PCMP-E27 PE=2 SV=1

 Score =  300 bits (767), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 180/557 (32%), Positives = 288/557 (51%), Gaps = 43/557 (7%)

Query: 20  LGKCMKSKALRQGKQVHALLCTNDLN-IFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNV 78
           L KC     L Q KQ+HA +   +L+    +  KL+   + C   N A  VF+++  PNV
Sbjct: 26  LPKCAN---LNQVKQLHAQIIRRNLHEDLHIAPKLISALSLCRQTNLAVRVFNQVQEPNV 82

Query: 79  FMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAV 138
            + N ++ A A      +A   FS M+ F    + FT+  +LKAC G   +   K +H  
Sbjct: 83  HLCNSLIRAHAQNSQPYQAFFVFSEMQRFGLFADNFTYPFLLKACSGQSWLPVVKMMHNH 142

Query: 139 ATQMGFENDVSVGNALIDMYSKC---------------------------------GLLC 165
             ++G  +D+ V NALID YS+C                                 G L 
Sbjct: 143 IEKLGLSSDIYVPNALIDCYSRCGGLGVRDAMKLFEKMSERDTVSWNSMLGGLVKAGELR 202

Query: 166 SARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYA 225
            ARR+F  M +RD++SW +M+ GY    ++ +A  LFE+M     E N  +++ ++  Y+
Sbjct: 203 DARRLFDEMPQRDLISWNTMLDGYARCREMSKAFELFEKMP----ERNTVSWSTMVMGYS 258

Query: 226 RRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNV 285
           + GD   A   F +M       ++VTW  +I+G+A+     EA +L   M+ SG+K +  
Sbjct: 259 KAGDMEMARVMFDKMPLPA--KNVVTWTIIIAGYAEKGLLKEADRLVDQMVASGLKFDAA 316

Query: 286 TVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEIT 345
            V  +L A   +G + +G  IH+++ R  L  + +  +AL+DMY+KCG+LK A  +F   
Sbjct: 317 AVISILAACTESGLLSLGMRIHSILKRSNLGSNAYVLNALLDMYAKCGNLKKAFDVFNDI 376

Query: 346 RIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGL 405
             K++ SWN M+   G HG    +IELF RM  EG+R ++VT I+VL +C+H GL+++G+
Sbjct: 377 PKKDLVSWNTMLHGLGVHGHGKEAIELFSRMRREGIRPDKVTFIAVLCSCNHAGLIDEGI 436

Query: 406 EIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNI 465
           + F SM++ Y +    EHY C+VD+L R GR+ EA  +++ +PM     + GA    C +
Sbjct: 437 DYFYSMEKVYDLVPQVEHYGCLVDLLGRVGRLKEAIKVVQTMPMEPNVVIWGALLGACRM 496

Query: 466 HGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFS 525
           H   D+A  + +   ++    P  + +LSNI AA  +W    ++R  MK   V+K  G S
Sbjct: 497 HNEVDIAKEVLDNLVKLDPCDPGNYSLLSNIYAAAEDWEGVADIRSKMKSMGVEKPSGAS 556

Query: 526 RVEKRNEFVEKEVQNES 542
            VE  +   E  V ++S
Sbjct: 557 SVELEDGIHEFTVFDKS 573

Arabidopsis thaliana (taxid: 3702)

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

 Score =  299 bits (766), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 177/556 (31%), Positives = 284/556 (51%), Gaps = 44/556 (7%)

Query: 14  NYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFS---LKSKLVGVYAGCGDVNSARLVF 70
           N L  L+  C     L +G+Q+HA   T  L   S   ++  L+ +YA C D+ +A   F
Sbjct: 390 NTLASLVVACSADGTLFRGQQLHAY--TTKLGFASNNKIEGALLNLYAKCADIETALDYF 447

Query: 71  DKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIK 130
            +    NV + N M++A     + + +   F  M+      N++T+  +LK C+ L D++
Sbjct: 448 LETEVENVVLWNVMLVAYGLLDDLRNSFRIFRQMQIEEIVPNQYTYPSILKTCIRLGDLE 507

Query: 131 KGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYC 190
            G+Q+H+   +  F+ +  V + LIDMY+K G L +A  +      +DVVSWT+MI+GY 
Sbjct: 508 LGEQIHSQIIKTNFQLNAYVCSVLIDMYAKLGKLDTAWDILIRFAGKDVVSWTTMIAGYT 567

Query: 191 NVSKVDEAVVLFERM--------------------KLEGLEPNQFTY------------- 217
             +  D+A+  F +M                     L+ L+  Q  +             
Sbjct: 568 QYNFDDKALTTFRQMLDRGIRSDEVGLTNAVSACAGLQALKEGQQIHAQACVSGFSSDLP 627

Query: 218 --NAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGM 275
             NA++  Y+R G    ++  F +  A     D + WNA++SGF QS    EAL++F  M
Sbjct: 628 FQNALVTLYSRCGKIEESYLAFEQTEA----GDNIAWNALVSGFQQSGNNEEALRVFVRM 683

Query: 276 LVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSL 335
              GI  NN T    ++A   T +++ G+++HA++ + G   +    +ALI MY+KCGS+
Sbjct: 684 NREGIDNNNFTFGSAVKAASETANMKQGKQVHAVITKTGYDSETEVCNALISMYAKCGSI 743

Query: 336 KDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSAC 395
            DA   F     KN  SWNA+I  Y KHG    +++ F++M+   +R N VTL+ VLSAC
Sbjct: 744 SDAEKQFLEVSTKNEVSWNAIINAYSKHGFGSEALDSFDQMIHSNVRPNHVTLVGVLSAC 803

Query: 396 SHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSM 455
           SH GLV+KG+  F SM   YG+    EHY CVVDML R+G +  A + ++++P+     +
Sbjct: 804 SHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDMLTRAGLLSRAKEFIQEMPIKPDALV 863

Query: 456 AGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKE 515
                + C +H   ++         E+       +V+LSN+ A   +W   +  R+ MKE
Sbjct: 864 WRTLLSACVVHKNMEIGEFAAHHLLELEPEDSATYVLLSNLYAVSKKWDARDLTRQKMKE 923

Query: 516 KNVQKQPGFSRVEKRN 531
           K V+K+PG S +E +N
Sbjct: 924 KGVKKEPGQSWIEVKN 939

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	544
224057531	599	predicted protein [Populus trichocarpa]	0.981	0.891	0.630	0.0
147862347	566	hypothetical protein VITISV_004991 [Viti	0.930	0.893	0.614	0.0
225434871	545	PREDICTED: pentatricopeptide repeat-cont	0.922	0.921	0.380	3e-97
147860004	1321	hypothetical protein VITISV_006763 [Viti	0.922	0.380	0.378	2e-96
255559020	547	pentatricopeptide repeat-containing prot	0.944	0.939	0.358	6e-94
297741272	658	unnamed protein product [Vitis vinifera]	0.898	0.743	0.375	3e-91
148909481	795	unknown [Picea sitchensis]	0.941	0.644	0.337	4e-91
168044807	902	predicted protein [Physcomitrella patens	0.913	0.550	0.361	3e-90
356541211	548	PREDICTED: pentatricopeptide repeat-cont	0.926	0.919	0.360	4e-90
297819536	1217	hypothetical protein ARALYDRAFT_485272 [	0.930	0.415	0.350	6e-90

>gi|224057531|ref|XP_002299253.1| predicted protein [Populus trichocarpa] gi|222846511|gb|EEE84058.1| predicted protein [Populus trichocarpa]

 Score =  683 bits (1763), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 339/538 (63%), Positives = 418/538 (77%), Gaps = 4/538 (0%)

Query: 9   NNLSVNYLDCLLGKCMKSKALRQGKQVHALLCT--NDLNIFSLKSKLVGVYAGCGDVNSA 66
           +N+S++ +  LL +C+K K LR GKQVHA L T   DL I SL SKLVG+YA CGDV SA
Sbjct: 20  SNISLDPIAGLLKQCLKFKTLRGGKQVHAWLVTRGTDLRILSLNSKLVGMYASCGDVKSA 79

Query: 67  RLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGL 126
            LVF +I NPNVF LNWMV+ASAF G ++EAIGYF  M++ ++  NK+TFSIVLKA VGL
Sbjct: 80  TLVFKRIRNPNVFALNWMVLASAFEGYYKEAIGYFCSMKDSVFIYNKYTFSIVLKAFVGL 139

Query: 127 LDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMI 186
           LD+ KGK+VH++  Q+GFE+DV V NAL+DMYSKCG +  AR VF  M +RD+VSWTSMI
Sbjct: 140 LDLNKGKEVHSMVKQLGFESDVCVANALVDMYSKCGCIGYARTVFDRMAKRDIVSWTSMI 199

Query: 187 SGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFV 246
           SGYCNV K++EA+VLFERMKLEGLEPN FT+NA+I+ YARRGDS+ AF+  S+MT EG V
Sbjct: 200 SGYCNVGKIEEALVLFERMKLEGLEPNDFTWNALISGYARRGDSDGAFSLLSKMTREGLV 259

Query: 247 PDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREI 306
           PDLVTWNAMI+GF Q +R  +A KLF+ MLV G+KPN VTV G+L A G+  SIQ GR I
Sbjct: 260 PDLVTWNAMIAGFVQGERAGDAFKLFQDMLVLGVKPNLVTVAGLLPACGMVSSIQRGRAI 319

Query: 307 HALVCRMGLHI-DVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGM 365
           H LV R+   I + F  SALIDMYS+CGS K+ART+FE    KNVASWNAMIGCYGKHGM
Sbjct: 320 HGLVYRLEFDISNAFIASALIDMYSECGSFKEARTVFEKIHNKNVASWNAMIGCYGKHGM 379

Query: 366 VDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYA 425
           V++SI+LFERM  EG++AN+VTL+ VLSACSH G VEKGLEIF SMKERY V   KEHYA
Sbjct: 380 VNTSIQLFERMHGEGIQANDVTLLCVLSACSHSGYVEKGLEIFWSMKERYMVDRKKEHYA 439

Query: 426 CVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR 485
           CVVDML RSGR+V+AY+L++++P+ VT S+AGAF NGC IHGRRDLA  M ++     L+
Sbjct: 440 CVVDMLSRSGRLVDAYELVKEMPIEVTKSIAGAFFNGCMIHGRRDLAEKMIDDVTRGDLK 499

Query: 486 KPDGFVMLSNICAADGEWHEAEN-LRKIMKEKNVQKQPGFSRVEKRNEFVEKEVQNES 542
           KP  F MLS I A  GE  E  N ++KI+KE+  QK+P  S+VE+++EFV  E++ E+
Sbjct: 500 KPGSFAMLSAIYATSGERKEVRNTMKKIVKERKAQKEPACSQVEEKDEFVGVEIEKEN 557

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147862347|emb|CAN84022.1| hypothetical protein VITISV_004991 [Vitis vinifera]

 Score =  660 bits (1704), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 329/535 (61%), Positives = 390/535 (72%), Gaps = 29/535 (5%)

Query: 11  LSVNYLDCLLGKCMKSKALRQGKQVHALLCTN--DLNIFSLKSKLVGVYAGCGDVNSARL 68
            SV   D    KC+K KAL+ GKQVHA+L  +  D+NI S+ SKLVG+YA CGD+ SARL
Sbjct: 22  FSVELNDPTXKKCLKCKALQPGKQVHAMLLASRIDMNILSMSSKLVGMYASCGDLQSARL 81

Query: 69  VFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLD 128
           V ++  NPNVF  NWMV A AF G  +EAIGYFSLM+E     NKFTFSIVLK CVGL+D
Sbjct: 82  VLERTQNPNVFAFNWMVSALAFHGYHEEAIGYFSLMQELGIVANKFTFSIVLKQCVGLMD 141

Query: 129 IKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISG 188
             KGK+VH V ++ G  N VSV N+ IDMY KCG +   R+VF GM ERDVVSWTSMI G
Sbjct: 142 FNKGKEVHCVISRTGLGNVVSVANSXIDMYCKCGHVGYGRKVFDGMIERDVVSWTSMICG 201

Query: 189 YCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPD 248
           YCN+  ++EA+VLFERMK+EGLEPN FT+N +IA YAR GD N AF  FSRM  EG VPD
Sbjct: 202 YCNIGTLEEALVLFERMKVEGLEPNDFTWNXMIAGYARDGDCNGAFVLFSRMVREGLVPD 261

Query: 249 LVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHA 308
           LVTWNAMISGF QS +  EA +LF+ M V+GIKPN VTVTG+L A GL GSI  G+E+H 
Sbjct: 262 LVTWNAMISGFTQSLKAVEAWRLFQDMXVAGIKPNQVTVTGLLPACGLMGSIHRGKELHG 321

Query: 309 LVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDS 368
           L+ RMG  ++VF  +ALID YSKCG++KDA  +F+   IKNVASWNAMIGCYGKHG+VDS
Sbjct: 322 LIYRMGXDMNVFVATALIDXYSKCGTVKDAWDVFDRIPIKNVASWNAMIGCYGKHGLVDS 381

Query: 369 SIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVV 428
           SI+LFERM  EGM+AN +TLISVLSACSHGGLVEKGL IF                    
Sbjct: 382 SIQLFERMQAEGMQANHITLISVLSACSHGGLVEKGLTIF-------------------- 421

Query: 429 DMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD 488
                  RMVEAY+L +++P+ VT+S+ GAF NGC IHGRRDLA  M E+   M L++P 
Sbjct: 422 -------RMVEAYELFKEMPIEVTDSIVGAFFNGCKIHGRRDLAKXMAEDILRMELKRPG 474

Query: 489 GFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRNEFVEKEVQNESK 543
           GFV LSNI AADGEW E EN+RK+MKE+ V K+PGFS VEKR+ FVE E +NE K
Sbjct: 475 GFVTLSNIYAADGEWEEVENIRKVMKEQGVHKKPGFSWVEKRDGFVESETRNEYK 529

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225434871|ref|XP_002280683.1| PREDICTED: pentatricopeptide repeat-containing protein At5g59600-like [Vitis vinifera]

 Score =  362 bits (929), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 193/507 (38%), Positives = 305/507 (60%), Gaps = 5/507 (0%)

Query: 25  KSKALRQGKQVHALLCTNDL-NIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNW 83
           + +AL +G+ +HA L    L  +    +KL+  Y  CG +++AR +FDKIPN N+    W
Sbjct: 39  RDRALYRGRALHAHLVIIGLARLTYFAAKLMSFYTECGQLSNARKLFDKIPNTNI--RRW 96

Query: 84  MVM--ASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQ 141
           +V+  A A  G ++EA+  FS M++   R N+F    +LKAC  L D + G+ +H V  +
Sbjct: 97  IVLTGACARRGFYEEALSAFSEMQKEGLRPNQFVLPSILKACGHLSDRRTGENMHTVILK 156

Query: 142 MGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVL 201
             FE+D  + +ALI MYSKCG +  A RVF  + ++D+V   +M+SGY     V EA+ L
Sbjct: 157 NSFESDAYIISALIYMYSKCGHVEKACRVFDWIVDKDLVVMNAMVSGYAQHGFVHEALNL 216

Query: 202 FERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQ 261
            ++M+  G++PN  ++N +IA +++ GD +     F  MTA G  PD+V+W ++ISGF Q
Sbjct: 217 VQKMQQAGVKPNVVSWNTLIAGFSQVGDKSMVSEVFRLMTANGVEPDVVSWTSVISGFVQ 276

Query: 262 SKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFT 321
           +   +E    FK ML  G  P++VT++ +L A     +++ G+EIH     +G+  DV+ 
Sbjct: 277 NFHNHEGFDAFKEMLDQGFCPSSVTISSLLPACTNVANLRHGKEIHGYAMVIGVEKDVYV 336

Query: 322 GSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGM 381
            SAL+DMY+KCG + +A+ LF +   +N  +WN++I  Y  HG  + +IELF +M E   
Sbjct: 337 RSALVDMYAKCGYISEAKILFYMMPERNTVTWNSLIFGYANHGYCNEAIELFNQMEESDT 396

Query: 382 RANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAY 441
           + + +T  +VL+ACSH G+VE G  +FR M+E+Y ++   EHYAC+VD+L R+G++ EAY
Sbjct: 397 KLDHLTFTAVLNACSHAGMVELGESLFRKMQEKYRIEPRLEHYACMVDLLGRAGKLSEAY 456

Query: 442 DLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG 501
           DL++ +P+     + GA    C  HG  +LA    E  FE+    P   ++LSN+ A  G
Sbjct: 457 DLIKAMPVEPDKFVWGALLGACRNHGNIELAEVAAEHLFELEPESPGSSLLLSNLYADAG 516

Query: 502 EWHEAENLRKIMKEKNVQKQPGFSRVE 528
            W  A  ++K+MK++   K PG S +E
Sbjct: 517 RWGNAAKMKKMMKQRKFGKFPGCSWIE 543

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147860004|emb|CAN81045.1| hypothetical protein VITISV_006763 [Vitis vinifera]

 Score =  359 bits (922), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 192/507 (37%), Positives = 304/507 (59%), Gaps = 5/507 (0%)

Query: 25   KSKALRQGKQVHALLCTNDL-NIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNW 83
            + +AL +G+ +HA L    L  +    +KL+  Y  CG +++AR +FDKIPN N+    W
Sbjct: 815  RDRALYRGRALHAHLVIIGLARLTYFAAKLMSFYTECGQLSNARKLFDKIPNTNI--RRW 872

Query: 84   MVM--ASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQ 141
            +V+  A A  G ++EA+  FS M++   R N+F    +LKAC  L D + G+ +H V  +
Sbjct: 873  IVLTGACARRGFYEEALSAFSEMQKEGLRPNQFVLPSILKACGHLSDRRTGENMHTVILK 932

Query: 142  MGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVL 201
              FE+D  + +ALI MYSKCG +  A RVF  + ++D+V   +M+SGY     V EA+ L
Sbjct: 933  NSFESDAYIISALIYMYSKCGHVEKACRVFDWIVDKDLVVMNAMVSGYAQHGFVHEALBL 992

Query: 202  FERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQ 261
             ++M+  G++PN  ++N +IA +++ GD +     F  MTA G  PD+V+W ++ISGF Q
Sbjct: 993  VQKMQQAGVKPNVVSWNTLIAGFSQVGDKSMVSEVFRLMTANGVEPDVVSWTSVISGFVQ 1052

Query: 262  SKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFT 321
            +   +E    FK ML  G  P++VT++ +L A     +++ G+EIH     +G+  DV+ 
Sbjct: 1053 NFHNHEGFDAFKEMLDQGFCPSSVTISSLLPACTNVANLRHGKEIHGYAMVIGVEKDVYV 1112

Query: 322  GSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGM 381
             SAL+DMY+KCG + +A+ LF +   +N  +WN++I  Y  HG  + +IELF +M E   
Sbjct: 1113 RSALVDMYAKCGYISEAKILFYMMPERNTVTWNSLIFGYANHGYCNEAIELFNQMEESDT 1172

Query: 382  RANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAY 441
            + + +T  +VL+ACSH G+VE G  +F  M+E+Y ++   EHYAC+VD+L R+G++ EAY
Sbjct: 1173 KLDHLTFTAVLNACSHAGMVELGESLFXKMQEKYRIEPRLEHYACMVDLLGRAGKLSEAY 1232

Query: 442  DLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG 501
            DL++ +P+     + GA    C  HG  +LA    E  FE+    P   ++LSN+ A  G
Sbjct: 1233 DLIKAMPVEPDKFVWGALLGACRNHGNIELAEVAAEHLFELEPESPGSSLLLSNLYADAG 1292

Query: 502  EWHEAENLRKIMKEKNVQKQPGFSRVE 528
             W  A  ++K+MK++   K PG S +E
Sbjct: 1293 RWGNAAKMKKMMKQRKFGKFPGCSWIE 1319

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255559020|ref|XP_002520533.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223540375|gb|EEF41946.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  351 bits (900), Expect = 6e-94,   Method: Compositional matrix adjust.
 Identities = 187/521 (35%), Positives = 295/521 (56%), Gaps = 7/521 (1%)

Query: 12  SVNYLDCLLGKCMKSKALRQGKQVHALLCTNDL---NIFSLKSKLVGVYAGCGDVNSARL 68
           S++  D L+    +  AL QGK +HA L  + L   N F+  SKL+  Y     ++  R 
Sbjct: 28  SLHTFDELIKTYTRDHALNQGKHLHARLIVSGLASSNNFA--SKLISFYTETRQLSIVRK 85

Query: 69  VFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLD 128
           +FD+IP PN +    ++ A +  G +Q+ +  FS M+    R NKF    VL+AC  + D
Sbjct: 86  LFDRIPKPNFYQRTVLIGAYSRHGFYQDVLDVFSEMQNERLRPNKFVIPSVLRACGHVFD 145

Query: 129 IKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISG 188
           ++ GK +H+V  +  FE+DV V  ALIDMYS+C  +  AR+VF GM E+D+V+  +M+ G
Sbjct: 146 LQTGKILHSVILRHLFESDVVVNTALIDMYSRCRHVEKARKVFDGMQEKDLVALNAMVLG 205

Query: 189 YCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPD 248
           Y       E  +L E+M++  ++PN  T+N +I+ +A+ GD       F  M+  GF PD
Sbjct: 206 YAQNGFAKEGFLLVEQMQMLDIKPNLVTWNTLISGFAQAGDKVMVQELFGLMSMHGFEPD 265

Query: 249 LVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHA 308
           +++W ++IS F Q+     A   FK ML  G  PN+ T++ +L A     +++ GRE+H 
Sbjct: 266 VISWTSVISRFVQNSHNEAAFAAFKQMLQHGAYPNSATISSLLPACASLANVRHGRELHG 325

Query: 309 LVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDS 368
               +G+  D++  SA++DMYSKCG + +AR LF     ++  +WN+MI  Y  HG  D 
Sbjct: 326 YAFAIGVEEDIYVRSAIVDMYSKCGLISEARMLFSKMPERHTVTWNSMIFGYANHGYCDE 385

Query: 369 SIELFERMLE-EGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACV 427
           +IELF +M + E  + + ++  +VL+ACSHG LVE G  +F  M E+Y +    EHYAC+
Sbjct: 386 AIELFNQMEKTEAKKIDHLSFTAVLTACSHGRLVELGQSLFLLMHEKYKIVPRLEHYACM 445

Query: 428 VDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKP 487
           +D+L R+G++ EAYD+++ +P+     + GA    C  HG  DLA        E+  R  
Sbjct: 446 IDLLGRAGKLSEAYDMIKTMPVEPDLFVWGALLGACRQHGEIDLAEIAARHLAELEPRNA 505

Query: 488 DGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVE 528
              ++LSN+ A  G W     L K+ K K ++K   +S ++
Sbjct: 506 GNNMLLSNLYADAGSWENVAKL-KMGKRKRLRKFSAYSWIQ 545

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297741272|emb|CBI32403.3| unnamed protein product [Vitis vinifera]

 Score =  342 bits (878), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 189/504 (37%), Positives = 298/504 (59%), Gaps = 15/504 (2%)

Query: 32  GKQVHALLCT-NDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAF 90
            K +HALL     +    + ++LV +YA  GDV+ +R  FD+IP  +V+  N M+ A   
Sbjct: 35  AKCLHALLVVAGKVQSIFISTRLVNLYANLGDVSLSRCTFDQIPQKDVYAWNSMISAYVH 94

Query: 91  TGNFQEAIG-YFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVS 149
            G+F EAIG ++ L+     R + +TF  VLKAC  L+D   G+++H  A ++GF+ +V 
Sbjct: 95  NGHFHEAIGCFYQLLLVSEIRPDFYTFPPVLKACGTLVD---GRKIHCWAFKLGFQWNVF 151

Query: 150 VGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEG 209
           V  +LI MYS+ G    AR +F  M  RD+ SW +MISG        +A+ + + M+LEG
Sbjct: 152 VAASLIHMYSRFGFTGIARSLFDDMPFRDMGSWNAMISGLIQNGNAAQALDVLDEMRLEG 211

Query: 210 LEPNQFTYNAIIAS----YARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRE 265
           ++ N  T  +I+      YA+ G  ++A   F  +     V D+++WN +I+G+AQ+   
Sbjct: 212 IKMNFVTVVSILPVFVDMYAKLGLLDSAHKVFEIIP----VKDVISWNTLITGYAQNGLA 267

Query: 266 NEALKLFKGML-VSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSA 324
           +EA++++K M     I PN  T   +L A    G++Q G +IH  V +  LH+DVF  + 
Sbjct: 268 SEAIEVYKMMEECKEIIPNQGTWVSILPAYAHVGALQQGMKIHGRVIKTNLHLDVFVATC 327

Query: 325 LIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRAN 384
           LID+Y KCG L DA +LF     ++  +WNA+I C+G HG  + +++LF  ML+EG++ +
Sbjct: 328 LIDVYGKCGRLVDAMSLFYQVPQESSVTWNAIISCHGIHGHAEKTLKLFGEMLDEGVKPD 387

Query: 385 EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLL 444
            VT +S+LSACSH G VE+G   FR M+E YG+K S +HY C+VD+L R+G +  AYD +
Sbjct: 388 HVTFVSLLSACSHSGFVEEGKWCFRLMQE-YGIKPSLKHYGCMVDLLGRAGYLEMAYDFI 446

Query: 445 RQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWH 504
           + +P+    S+ GA    C IHG  +L     +  FE+  +    +V+LSNI A  G+W 
Sbjct: 447 KDMPLQPDASIWGALLGACRIHGNIELGKFASDRLFEVDSKNVGYYVLLSNIYANVGKWE 506

Query: 505 EAENLRKIMKEKNVQKQPGFSRVE 528
             + +R + +E+ ++K PG+S +E
Sbjct: 507 GVDKVRSLARERGLKKTPGWSTIE 530

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|148909481|gb|ABR17838.1| unknown [Picea sitchensis]

 Score =  342 bits (876), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 188/557 (33%), Positives = 298/557 (53%), Gaps = 45/557 (8%)

Query: 19  LLGKCMKSKALRQGKQVHALLCTNDL-NIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPN 77
           ++  C     L+ G++VH  +      +   + + L  +Y  CG + +AR VFD++P  +
Sbjct: 126 VIKACGSQSDLQAGRKVHEDIIARGFESDVIVGTALASMYTKCGSLENARQVFDRMPKRD 185

Query: 78  VFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHA 137
           V   N ++   +  G   EA+  FS M+    + N  T   V+  C  LL +++GKQ+H 
Sbjct: 186 VVSWNAIIAGYSQNGQPYEALALFSEMQVNGIKPNSSTLVSVMPVCAHLLALEQGKQIHC 245

Query: 138 VATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDE 197
            A + G E+DV V N L++MY+KCG + +A ++F  M  RDV SW ++I GY   S+  E
Sbjct: 246 YAIRSGIESDVLVVNGLVNMYAKCGNVNTAHKLFERMPIRDVASWNAIIGGYSLNSQHHE 305

Query: 198 AVVLFERMKLEGLEPNQFTY-----------------------------------NAIIA 222
           A+  F RM++ G++PN  T                                    NA++ 
Sbjct: 306 ALAFFNRMQVRGIKPNSITMVSVLPACAHLFALEQGQQIHGYAIRSGFESNDVVGNALVN 365

Query: 223 SYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKP 282
            YA+ G+ N+A+  F RM  +    ++V WNA+ISG++Q    +EAL LF  M   GIKP
Sbjct: 366 MYAKCGNVNSAYKLFERMPKK----NVVAWNAIISGYSQHGHPHEALALFIEMQAQGIKP 421

Query: 283 NNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLF 342
           ++  +  VL A     +++ G++IH    R G   +V  G+ L+D+Y+KCG++  A+ LF
Sbjct: 422 DSFAIVSVLPACAHFLALEQGKQIHGYTIRSGFESNVVVGTGLVDIYAKCGNVNTAQKLF 481

Query: 343 EITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVE 402
           E    ++V SW  MI  YG HG  + ++ LF +M E G + + +   ++L+ACSH GLV+
Sbjct: 482 ERMPEQDVVSWTTMILAYGIHGHGEDALALFSKMQETGTKLDHIAFTAILTACSHAGLVD 541

Query: 403 KGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNG 462
           +GL+ F+ MK  YG+    EHYAC+VD+L R+G + EA  +++ + +    ++ GA    
Sbjct: 542 QGLQYFQCMKSDYGLAPKLEHYACLVDLLGRAGHLDEANGIIKNMSLEPDANVWGALLGA 601

Query: 463 CNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQP 522
           C IH   +L     +  FE+       +V+LSNI A    W +   LRK+MKEK V+KQP
Sbjct: 602 CRIHCNIELGEQAAKHLFELDPDNAGYYVLLSNIYAEAQRWEDVAKLRKMMKEKGVKKQP 661

Query: 523 GFSRVEKRNEFVEKEVQ 539
           G S V      V ++VQ
Sbjct: 662 GCSVVA-----VHRDVQ 673

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168044807|ref|XP_001774871.1| predicted protein [Physcomitrella patens subsp. patens] gi|162673765|gb|EDQ60283.1| predicted protein [Physcomitrella patens subsp. patens]

 Score =  338 bits (868), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 194/537 (36%), Positives = 291/537 (54%), Gaps = 40/537 (7%)

Query: 28  ALRQGKQVHA-LLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVM 86
           AL+ GK VH+ +L     +  ++ + LV +YA CG     R VF+K+ N ++   N M+ 
Sbjct: 242 ALKWGKAVHSRILNAGHESDTAVGTALVKMYAKCGSYKDCRQVFEKLVNRDLIAWNTMIG 301

Query: 87  ASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFEN 146
             A  G ++EA   ++ M+      NK T+ I+L ACV    +  GK++H+   + GF +
Sbjct: 302 GLAEGGYWEEASEVYNQMQREGVMPNKITYVILLNACVNSAALHWGKEIHSRVAKAGFTS 361

Query: 147 DVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMK 206
           D+ V NALI MYS+CG +  AR VF  M  +DV+SWT+MI G        EA+ +++ M+
Sbjct: 362 DIGVQNALISMYSRCGSIKDARLVFDKMVRKDVISWTAMIGGLAKSGFGAEALTVYQEMQ 421

Query: 207 LEGLEPNQFTYNAIIAS--------YARR---------------------------GDSN 231
             G+EPN+ TY +I+ +        + RR                           G   
Sbjct: 422 QAGVEPNRVTYTSILNACSSPAALEWGRRIHQQVVEAGLATDAHVGNTLVNMYSMCGSVK 481

Query: 232 AAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVL 291
            A   F RM       D+V +NAMI G+A      EALKLF  +   G+KP+ VT   +L
Sbjct: 482 DARQVFDRMIQR----DIVAYNAMIGGYAAHNLGKEALKLFDRLQEEGLKPDKVTYINML 537

Query: 292 QAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVA 351
            A   +GS++  REIH LV + G   D   G+AL+  Y+KCGS  DA  +FE    +NV 
Sbjct: 538 NACANSGSLEWAREIHTLVRKGGFFSDTSVGNALVSTYAKCGSFSDASIVFEKMTKRNVI 597

Query: 352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSM 411
           SWNA+IG   +HG    +++LFERM  EG++ + VT +S+LSACSH GL+E+G   F SM
Sbjct: 598 SWNAIIGGSAQHGRGQDALQLFERMKMEGVKPDIVTFVSLLSACSHAGLLEEGRRYFCSM 657

Query: 412 KERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDL 471
            + + +  + EHY C+VD+L R+G++ EA  L++ +P      + GA    C IHG   +
Sbjct: 658 SQDFAIIPTIEHYGCMVDLLGRAGQLDEAEALIKTMPFQANTRIWGALLGACRIHGNVPV 717

Query: 472 AVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVE 528
           A    E   ++ L     +V LS++ AA G W  A  LRK+M+++ V K+PG S ++
Sbjct: 718 AERAAESSLKLDLDNAVVYVALSHMYAAAGMWDSAAKLRKLMEQRGVTKEPGRSWIQ 774

Source: Physcomitrella patens subsp. patens

Species: Physcomitrella patens

Genus: Physcomitrella

Family: Funariaceae

Order: Funariales

Class: Bryopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356541211|ref|XP_003539074.1| PREDICTED: pentatricopeptide repeat-containing protein At5g59600-like [Glycine max]

 Score =  338 bits (868), Expect = 4e-90,   Method: Compositional matrix adjust.
 Identities = 183/508 (36%), Positives = 290/508 (57%), Gaps = 4/508 (0%)

Query: 25  KSKALRQGKQVHALLCTNDLNIFSL-KSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNW 83
           + +AL  GK++HA L TN    F++  S LV  Y  CG ++ AR +FDKIP  NV     
Sbjct: 39  RDRALHAGKKLHAHLVTNGFARFNVVASNLVSFYTCCGQLSHARKLFDKIPTTNVRRWIA 98

Query: 84  MVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSI--VLKACVGLLDIKKGKQVHAVATQ 141
           ++ + A  G +  A+  FS M+        + F I  VLKAC  + D   G+++H    +
Sbjct: 99  LIGSCARCGFYDHALAVFSEMQAVQGLTPNYVFVIPSVLKACGHVGDRITGEKIHGFILK 158

Query: 142 MGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVL 201
             FE D  V ++LI MYSKC  +  AR+VF GM  +D V+  ++++GY      +EA+ L
Sbjct: 159 CSFELDSFVSSSLIVMYSKCAKVEDARKVFDGMTVKDTVALNAVVAGYVQQGAANEALGL 218

Query: 202 FERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQ 261
            E MKL GL+PN  T+N++I+ ++++GD       F  M A+G  PD+V+W ++ISGF Q
Sbjct: 219 VESMKLMGLKPNVVTWNSLISGFSQKGDQGRVSEIFRLMIADGVEPDVVSWTSVISGFVQ 278

Query: 262 SKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFT 321
           + R  EA   FK ML  G  P + T++ +L A      + +GREIH      G+  D++ 
Sbjct: 279 NFRNKEAFDTFKQMLSHGFHPTSATISALLPACATAARVSVGREIHGYALVTGVEGDIYV 338

Query: 322 GSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGM 381
            SAL+DMY+KCG + +AR LF     KN  +WN++I  +  HG  + +IELF +M +EG+
Sbjct: 339 RSALVDMYAKCGFISEARNLFSRMPEKNTVTWNSIIFGFANHGYCEEAIELFNQMEKEGV 398

Query: 382 -RANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEA 440
            + + +T  + L+ACSH G  E G  +F+ M+E+Y ++   EHYAC+VD+L R+G++ EA
Sbjct: 399 AKLDHLTFTAALTACSHVGDFELGQRLFKIMQEKYSIEPRLEHYACMVDLLGRAGKLHEA 458

Query: 441 YDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAAD 500
           Y +++ +P+     + GA    C  H   +LA        E+        ++LS++ A  
Sbjct: 459 YCMIKTMPIEPDLFVWGALLAACRNHRHVELAEVAAMHLMELEPESAANPLLLSSVYADA 518

Query: 501 GEWHEAENLRKIMKEKNVQKQPGFSRVE 528
           G+W + E ++K +K+  ++K  G S +E
Sbjct: 519 GKWGKFERVKKRIKKGKLRKLQGLSWIE 546

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297819536|ref|XP_002877651.1| hypothetical protein ARALYDRAFT_485272 [Arabidopsis lyrata subsp. lyrata] gi|297323489|gb|EFH53910.1| hypothetical protein ARALYDRAFT_485272 [Arabidopsis lyrata subsp. lyrata]

 Score =  338 bits (866), Expect = 6e-90,   Method: Compositional matrix adjust.
 Identities = 180/514 (35%), Positives = 290/514 (56%), Gaps = 8/514 (1%)

Query: 19  LLGKCMKS-KALRQGKQVHALLCTNDLNI-FSLKSKLVGVYAGCGDVNSARLVFDKIPNP 76
           +LG+ + +   L+  + VH+ + + DL    SL  KL+  YA   DV +AR VFD+IP  
Sbjct: 45  MLGQVLDTYPDLKTLRTVHSRIISEDLRYNSSLGVKLMRAYASLKDVATARKVFDEIPER 104

Query: 77  NVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVH 136
           NV ++N M+ +    G ++E I  F  M     + + +TF  VLKAC    +I  GK++H
Sbjct: 105 NVIIINVMIRSYVNNGFYREGIQVFGTMCSCHVKPDHYTFPCVLKACSCSGNIVIGKKIH 164

Query: 137 AVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVD 196
             AT++G  + + VGN L+ MY KCG L  AR V   M  RDVVSW S+++GY    + D
Sbjct: 165 GSATKVGLSSTLFVGNGLVSMYGKCGFLSEARLVLDEMSRRDVVSWNSLVAGYAQNQRFD 224

Query: 197 EAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFA--FFSRMTAEGFVPDLVTWNA 254
           +A+ +   M+   +  +  T  +++ + +     N  +    F +M  +     LV+WN 
Sbjct: 225 DALEVCREMESVKISHDAGTMASLLPAVSNTTTENVMYVKDMFFKMGKKS----LVSWNV 280

Query: 255 MISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMG 314
           MI  + ++    EA++L+ GM   G +P+ V++T VL A G T ++ +G++IH  + R  
Sbjct: 281 MIGVYMKNAMPVEAVELYSGMEADGFEPDAVSITSVLPACGDTSALSLGKKIHGYIERKK 340

Query: 315 LHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFE 374
           L  ++   +ALIDMY+KCG L  AR +FE  + ++V SW AMI  YG  G    ++ LF 
Sbjct: 341 LIPNLLLENALIDMYAKCGCLDRARDVFENMKSRDVVSWTAMISAYGFSGRGCDAVALFS 400

Query: 375 RMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRS 434
           +M + G+  + +  ++ L+ACSH GL+E+G   F+ M + Y +    EH AC+VD+L R+
Sbjct: 401 KMQDSGLVPDSIAFVTTLAACSHAGLLEEGRSCFKLMTDHYKITPRLEHLACMVDLLGRA 460

Query: 435 GRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLS 494
           G++ EAY  ++++PM     + GA    C +H   D+ +   ++ F++   +   +V+LS
Sbjct: 461 GKVKEAYKFIQEMPMEPNERVWGALLGACRVHSNTDIGLLAADKLFQLAPEQSGYYVLLS 520

Query: 495 NICAADGEWHEAENLRKIMKEKNVQKQPGFSRVE 528
           NI A  G W E  N+R IMK K ++K PG S VE
Sbjct: 521 NIYAKAGRWEEVTNIRNIMKSKGLKKNPGASNVE 554

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	544
TAIR|locus:2148393	534	AT5G59600 "AT5G59600" [Arabido	0.950	0.968	0.340	1.7e-82
TAIR|locus:2825379	681	AT1G71490 "AT1G71490" [Arabido	0.573	0.458	0.305	2e-73
TAIR|locus:2017744	703	AT1G22830 [Arabidopsis thalian	0.568	0.439	0.307	3.2e-71
TAIR|locus:2117084	545	AT4G18840 "AT4G18840" [Arabido	0.895	0.893	0.328	3.7e-71
TAIR|locus:2162207	830	CRR21 "chlororespiratory reduc	0.970	0.636	0.291	1.3e-70
TAIR|locus:2019160	643	AT1G74630 [Arabidopsis thalian	0.930	0.786	0.316	1.9e-67
TAIR|locus:2150996	548	AT5G15300 "AT5G15300" [Arabido	0.909	0.903	0.313	1.5e-65
TAIR|locus:2013079	894	AT1G19720 "AT1G19720" [Arabido	0.875	0.532	0.332	2.5e-65
TAIR|locus:2140235	781	AT4G02750 [Arabidopsis thalian	0.915	0.637	0.312	8.5e-65
TAIR|locus:2198546	760	AT1G20230 "AT1G20230" [Arabido	0.926	0.663	0.293	1.4e-64

TAIR|locus:2148393 AT5G59600 "AT5G59600" [Arabidopsis thaliana (taxid:3702)]

 Score = 827 (296.2 bits), Expect = 1.7e-82, P = 1.7e-82
 Identities = 177/520 (34%), Positives = 298/520 (57%)

Query:    11 LSV-NYLDCLLGKCMKSKALRQGKQVHALLCTNDL-NIFSLKSKLVGVYAGCGDVNSARL 68
             LS+ +Y++ L+    + +   +G+ +HA L T+ +  +  + +KLV  Y  CG V  AR 
Sbjct:    14 LSIGSYVE-LIEANGRDRLFCRGRVLHAHLVTSGIARLTRIAAKLVTFYVECGKVLDARK 72

Query:    69 VFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLD 128
             VFD++P  ++     M+ A A  G +QE++ +F  M +   + + F    +LKA   LLD
Sbjct:    73 VFDEMPKRDISGCVVMIGACARNGYYQESLDFFREMYKDGLKLDAFIVPSLLKASRNLLD 132

Query:   129 IKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISG 188
              + GK +H +  +  +E+D  + ++LIDMYSK G + +AR+VF  + E+D+V + +MISG
Sbjct:   133 REFGKMIHCLVLKFSYESDAFIVSSLIDMYSKFGEVGNARKVFSDLGEQDLVVFNAMISG 192

Query:   189 YCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPD 248
             Y N S+ DEA+ L + MKL G++P+  T+NA+I+ ++   +          M  +G+ PD
Sbjct:   193 YANNSQADEALNLVKDMKLLGIKPDVITWNALISGFSHMRNEEKVSEILELMCLDGYKPD 252

Query:   249 LVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHA 308
             +V+W ++ISG   + +  +A   FK ML  G+ PN+ T+  +L A      ++ G+EIH 
Sbjct:   253 VVSWTSIISGLVHNFQNEKAFDAFKQMLTHGLYPNSATIITLLPACTTLAYMKHGKEIHG 312

Query:   309 LVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDS 368
                  GL    F  SAL+DMY KCG + +A  LF  T  K   ++N+MI CY  HG+ D 
Sbjct:   313 YSVVTGLEDHGFVRSALLDMYGKCGFISEAMILFRKTPKKTTVTFNSMIFCYANHGLADK 372

Query:   369 SIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVV 428
             ++ELF++M   G + + +T  ++L+ACSH GL + G  +F  M+ +Y +    EHYAC+V
Sbjct:   373 AVELFDQMEATGEKLDHLTFTAILTACSHAGLTDLGQNLFLLMQNKYRIVPRLEHYACMV 432

Query:   429 DMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD 488
             D+L R+G++VEAY++++ + M     + GA    C  HG  +LA    +   E+      
Sbjct:   433 DLLGRAGKLVEAYEMIKAMRMEPDLFVWGALLAACRNHGNMELARIAAKHLAELEPENSG 492

Query:   489 GFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVE 528
               ++L+++ A  G W     ++K++K+K  ++  G S VE
Sbjct:   493 NGLLLTSLYANAGSWESVVRMKKMIKKKRFRRFLGSSWVE 532

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0033044 "regulation of chromosome organization" evidence=RCA

GO:0042138 "meiotic DNA double-strand break formation" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

TAIR|locus:2825379 AT1G71490 "AT1G71490" [Arabidopsis thaliana (taxid:3702)]

 Score = 482 (174.7 bits), Expect = 2.0e-73, Sum P(2) = 2.0e-73
 Identities = 97/317 (30%), Positives = 175/317 (55%)

Query:   218 NAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLV 277
             N +I  Y++  D   A   F R T E     L TWN++ISG+AQ  +  EA  L + MLV
Sbjct:   319 NTLITMYSKCKDLRHALIVF-RQTEEN---SLCTWNSIISGYAQLNKSEEASHLLREMLV 374

Query:   278 SGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHID-VFTGSALIDMYSKCGSLK 336
             +G +PN++T+  +L       ++Q G+E H  + R     D     ++L+D+Y+K G + 
Sbjct:   375 AGFQPNSITLASILPLCARIANLQHGKEFHCYILRRKCFKDYTMLWNSLVDVYAKSGKIV 434

Query:   337 DARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACS 396
              A+ + ++   ++  ++ ++I  YG  G    ++ LF+ M   G++ + VT+++VLSACS
Sbjct:   435 AAKQVSDLMSKRDEVTYTSLIDGYGNQGEGGVALALFKEMTRSGIKPDHVTVVAVLSACS 494

Query:   397 HGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMA 456
             H  LV +G  +F  M+  YG++   +H++C+VD+  R+G + +A D++  +P   + +  
Sbjct:   495 HSKLVHEGERLFMKMQCEYGIRPCLQHFSCMVDLYGRAGFLAKAKDIIHNMPYKPSGATW 554

Query:   457 GAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEK 516
                 N C+IHG   +     E+  EM    P  +V+++N+ AA G W +   +R IM++ 
Sbjct:   555 ATLLNACHIHGNTQIGKWAAEKLLEMKPENPGYYVLIANMYAAAGSWSKLAEVRTIMRDL 614

Query:   517 NVQKQPGFSRVEKRNEF 533
              V+K PG + ++  + F
Sbjct:   615 GVKKDPGCAWIDTDSGF 631

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2017744 AT1G22830 [Arabidopsis thaliana (taxid:3702)]

 Score = 473 (171.6 bits), Expect = 3.2e-71, Sum P(2) = 3.2e-71
 Identities = 98/319 (30%), Positives = 181/319 (56%)

Query:   218 NAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLV 277
             N++I  Y+R  D   AF  F ++ A      L TWN++ISGFA ++R  E   L K ML+
Sbjct:   361 NSLITMYSRCSDLRHAFIVFQQVEANS----LSTWNSIISGFAYNERSEETSFLLKEMLL 416

Query:   278 SGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHID-VFTGSALIDMYSKCGSLK 336
             SG  PN++T+  +L      G++Q G+E H  + R   + D +   ++L+DMY+K G + 
Sbjct:   417 SGFHPNHITLASILPLFARVGNLQHGKEFHCYILRRQSYKDCLILWNSLVDMYAKSGEII 476

Query:   337 DARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACS 396
              A+ +F+  R ++  ++ ++I  YG+ G  + ++  F+ M   G++ + VT+++VLSACS
Sbjct:   477 AAKRVFDSMRKRDKVTYTSLIDGYGRLGKGEVALAWFKDMDRSGIKPDHVTMVAVLSACS 536

Query:   397 HGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMA 456
             H  LV +G  +F  M+  +G+++  EHY+C+VD+ CR+G + +A D+   +P   +++M 
Sbjct:   537 HSNLVREGHWLFTKMEHVFGIRLRLEHYSCMVDLYCRAGYLDKARDIFHTIPYEPSSAMC 596

Query:   457 GAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD--G-FVMLSNICAADGEWHEAENLRKIM 513
                   C IHG  ++     ++       KP+  G +++L+++ A  G W +   ++ ++
Sbjct:   597 ATLLKACLIHGNTNIGEWAADKLLLE--TKPEHLGHYMLLADMYAVTGSWSKLVTVKTLL 654

Query:   514 KEKNVQKQPGFSRVEKRNE 532
              +  VQK   F+ +E  +E
Sbjct:   655 SDLGVQKAHEFALMETDSE 673

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2117084 AT4G18840 "AT4G18840" [Arabidopsis thaliana (taxid:3702)]

 Score = 720 (258.5 bits), Expect = 3.7e-71, P = 3.7e-71
 Identities = 165/502 (32%), Positives = 272/502 (54%)

Query:    25 KSKALRQGKQVHALLCTNDL--NIFSLKSKLVGVYAGCGD---VNSARLVFDKIPNPNVF 79
             ++K+L + +Q HA +    L  + FS  SKLV   A   +   V+ A  + ++I +PN F
Sbjct:    48 RAKSLTEIQQAHAFMLKTGLFHDTFSA-SKLVAFAATNPEPKTVSYAHSILNRIGSPNGF 106

Query:    80 MLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVA 139
               N ++ A A +   + A+  F  M       +K++F+ VLKAC      ++G+Q+H + 
Sbjct:   107 THNSVIRAYANSSTPEVALTVFREMLLGPVFPDKYSFTFVLKACAAFCGFEEGRQIHGLF 166

Query:   140 TQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAV 199
              + G   DV V N L+++Y + G    AR+V   M  RD VSW S++S Y     VDEA 
Sbjct:   167 IKSGLVTDVFVENTLVNVYGRSGYFEIARKVLDRMPVRDAVSWNSLLSAYLEKGLVDEAR 226

Query:   200 VLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGF 259
              LF+ M+    E N  ++N +I+ YA  G    A   F  M     V D+V+WNAM++ +
Sbjct:   227 ALFDEME----ERNVESWNFMISGYAAAGLVKEAKEVFDSMP----VRDVVSWNAMVTAY 278

Query:   260 AQSKRENEALKLFKGMLVSGI-KPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHID 318
             A     NE L++F  ML     KP+  T+  VL A    GS+  G  +H  + + G+ I+
Sbjct:   279 AHVGCYNEVLEVFNKMLDDSTEKPDGFTLVSVLSACASLGSLSQGEWVHVYIDKHGIEIE 338

Query:   319 VFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLE 378
              F  +AL+DMYSKCG +  A  +F  T  ++V++WN++I     HG+   ++E+F  M+ 
Sbjct:   339 GFLATALVDMYSKCGKIDKALEVFRATSKRDVSTWNSIISDLSVHGLGKDALEIFSEMVY 398

Query:   379 EGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMV 438
             EG + N +T I VLSAC+H G++++  ++F  M   Y V+ + EHY C+VD+L R G++ 
Sbjct:   399 EGFKPNGITFIGVLSACNHVGMLDQARKLFEMMSSVYRVEPTIEHYGCMVDLLGRMGKIE 458

Query:   439 EAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA 498
             EA +L+ ++P    + +  +    C   G+ + A  +     E+ LR   G+  +SN+ A
Sbjct:   459 EAEELVNEIPADEASILLESLLGACKRFGQLEQAERIANRLLELNLRDSSGYAQMSNLYA 518

Query:   499 ADGEWHEAENLRKIMKEKNVQK 520
             +DG W +  + R+ M+ + V +
Sbjct:   519 SDGRWEKVIDGRRNMRAERVNR 540

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2162207 CRR21 "chlororespiratory reduction 21" [Arabidopsis thaliana (taxid:3702)]

 Score = 715 (256.8 bits), Expect = 1.3e-70, P = 1.3e-70
 Identities = 157/538 (29%), Positives = 275/538 (51%)

Query:     3 RLIFPINNLSVNYLDCLLGKCMKSKA----LRQGKQVHALLCTNDLNIFS-LKSKLVGVY 57
             RL   +    V      +  C+ + A    + +GKQ HA+   N + + + L + L+  Y
Sbjct:   260 RLFSDMRKQGVEPTRVTVSTCLSASANMGGVEEGKQSHAIAIVNGMELDNILGTSLLNFY 319

Query:    58 AGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMR--EFIYRCNKFT 115
                G +  A +VFD++   +V   N ++      G  ++AI    LMR  +  Y C   T
Sbjct:   320 CKVGLIEYAEMVFDRMFEKDVVTWNLIISGYVQQGLVEDAIYMCQLMRLEKLKYDC--VT 377

Query:   116 FSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMF 175
              + ++ A     ++K GK+V     +  FE+D+ + + ++DMY+KCG +  A++VF    
Sbjct:   378 LATLMSAAARTENLKLGKEVQCYCIRHSFESDIVLASTVMDMYAKCGSIVDAKKVFDSTV 437

Query:   176 ERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFA 235
             E+D++ W ++++ Y       EA+ LF  M+LEG+ PN  T+N II S  R G  + A  
Sbjct:   438 EKDLILWNTLLAAYAESGLSGEALRLFYGMQLEGVPPNVITWNLIILSLLRNGQVDEAKD 497

Query:   236 FFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGG 295
              F +M + G +P+L++W  M++G  Q+    EA+   + M  SG++PN  ++T  L A  
Sbjct:   498 MFLQMQSSGIIPNLISWTTMMNGMVQNGCSEEAILFLRKMQESGLRPNAFSITVALSACA 557

Query:   296 LTGSIQIGREIHALVCRMGLHIDVFT-GSALIDMYSKCGSLKDARTLFEITRIKNVASWN 354
                S+ IGR IH  + R   H  + +  ++L+DMY+KCG +  A  +F       +   N
Sbjct:   558 HLASLHIGRTIHGYIIRNLQHSSLVSIETSLVDMYAKCGDINKAEKVFGSKLYSELPLSN 617

Query:   355 AMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKER 414
             AMI  Y  +G +  +I L+  +   G++ + +T+ +VLSAC+H G + + +EIF  +  +
Sbjct:   618 AMISAYALYGNLKEAIALYRSLEGVGLKPDNITITNVLSACNHAGDINQAIEIFTDIVSK 677

Query:   415 YGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVT 474
               +K   EHY  +VD+L  +G   +A  L+ ++P      M  +    CN   + +L   
Sbjct:   678 RSMKPCLEHYGLMVDLLASAGETEKALRLIEEMPFKPDARMIQSLVASCNKQRKTELVDY 737

Query:   475 MGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRNE 532
             +  +  E        +V +SN  A +G W E   +R++MK K ++K+PG S ++   E
Sbjct:   738 LSRKLLESEPENSGNYVTISNAYAVEGSWDEVVKMREMMKAKGLKKKPGCSWIQITGE 795

GO:0009507 "chloroplast" evidence=ISM

GO:0016556 "mRNA modification" evidence=RCA;IMP

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0030154 "cell differentiation" evidence=RCA

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

TAIR|locus:2019160 AT1G74630 [Arabidopsis thaliana (taxid:3702)]

 Score = 685 (246.2 bits), Expect = 1.9e-67, P = 1.9e-67
 Identities = 166/524 (31%), Positives = 277/524 (52%)

Query:    11 LSVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFS-LKSKLVGVYA-GCGD-VNSAR 67
             +++++   LL  C   +AL Q   +H L     ++  S    KL+   A    D +  AR
Sbjct:     3 IAIHHCLSLLNSCKNLRALTQ---IHGLFIKYGVDTDSYFTGKLILHCAISISDALPYAR 59

Query:    68 LVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYF-SLMRE-FIYRCNKFTFSIVLKACVG 125
              +    P P+ FM N +V   + +     ++  F  +MR+ F++  + F+F+ V+KA   
Sbjct:    60 RLLLCFPEPDAFMFNTLVRGYSESDEPHNSVAVFVEMMRKGFVFP-DSFSFAFVIKAVEN 118

Query:   126 LLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSM 185
                ++ G Q+H  A + G E+ + VG  LI MY  CG +  AR+VF  M + ++V+W ++
Sbjct:   119 FRSLRTGFQMHCQALKHGLESHLFVGTTLIGMYGGCGCVEFARKVFDEMHQPNLVAWNAV 178

Query:   186 ISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGF 245
             I+     + V  A  +F++M    L  N  ++N ++A Y + G+  +A   FS M     
Sbjct:   179 ITACFRGNDVAGAREIFDKM----LVRNHTSWNVMLAGYIKAGELESAKRIFSEMPHR-- 232

Query:   246 VPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGRE 305
               D V+W+ MI G A +   NE+   F+ +  +G+ PN V++TGVL A   +GS + G+ 
Sbjct:   233 --DDVSWSTMIVGIAHNGSFNESFLYFRELQRAGMSPNEVSLTGVLSACSQSGSFEFGKI 290

Query:   306 IHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKN-VASWNAMIGCYGKHG 364
             +H  V + G    V   +ALIDMYS+CG++  AR +FE  + K  + SW +MI     HG
Sbjct:   291 LHGFVEKAGYSWIVSVNNALIDMYSRCGNVPMARLVFEGMQEKRCIVSWTSMIAGLAMHG 350

Query:   365 MVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHY 424
               + ++ LF  M   G+  + ++ IS+L ACSH GL+E+G + F  MK  Y ++   EHY
Sbjct:   351 QGEEAVRLFNEMTAYGVTPDGISFISLLHACSHAGLIEEGEDYFSEMKRVYHIEPEIEHY 410

Query:   425 ACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGL 484
              C+VD+  RSG++ +AYD + Q+P+  T  +       C+ HG  +LA  + +   E+  
Sbjct:   411 GCMVDLYGRSGKLQKAYDFICQMPIPPTAIVWRTLLGACSSHGNIELAEQVKQRLNELDP 470

Query:   485 RKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVE 528
                   V+LSN  A  G+W +  ++RK M  + ++K   +S VE
Sbjct:   471 NNSGDLVLLSNAYATAGKWKDVASIRKSMIVQRIKKTTAWSLVE 514

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2150996 AT5G15300 "AT5G15300" [Arabidopsis thaliana (taxid:3702)]

 Score = 667 (239.9 bits), Expect = 1.5e-65, P = 1.5e-65
 Identities = 162/516 (31%), Positives = 274/516 (53%)

Query:    27 KALRQGKQVHALLCTNDL-NIFSLKSKLVGVYAGC----GDVNSARLVFDKIPNPNVFML 81
             K +R  KQ+HA +  N L +  S+  +L+  Y+      G +  A  +FD+IP P+V + 
Sbjct:    23 KNIRTLKQIHASMVVNGLMSNLSVVGELI--YSASLSVPGALKYAHKLFDEIPKPDVSIC 80

Query:    82 NWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQ 141
             N ++  SA +   ++ +  ++ M +     +++TF+ VLKAC  L     G   H    +
Sbjct:    81 NHVLRGSAQSMKPEKTVSLYTEMEKRGVSPDRYTFTFVLKACSKLEWRSNGFAFHGKVVR 140

Query:   142 MGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVL 201
              GF  +  V NALI  ++ CG L  A  +F    +   V+W+SM SGY    K+DEA+ L
Sbjct:   141 HGFVLNEYVKNALILFHANCGDLGIASELFDDSAKAHKVAWSSMTSGYAKRGKIDEAMRL 200

Query:   202 FERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQ 261
             F+ M  +    +Q  +N +I    +  + ++A   F R T +    D+VTWNAMISG+  
Sbjct:   201 FDEMPYK----DQVAWNVMITGCLKCKEMDSARELFDRFTEK----DVVTWNAMISGYVN 252

Query:   262 SKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMG-LHIDVF 320
                  EAL +FK M  +G  P+ VT+  +L A  + G ++ G+ +H  +     +   ++
Sbjct:   253 CGYPKEALGIFKEMRDAGEHPDVVTILSLLSACAVLGDLETGKRLHIYILETASVSSSIY 312

Query:   321 TGS----ALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERM 376
              G+    ALIDMY+KCGS+  A  +F   + +++++WN +I     H   + SIE+FE M
Sbjct:   313 VGTPIWNALIDMYAKCGSIDRAIEVFRGVKDRDLSTWNTLIVGLALHH-AEGSIEMFEEM 371

Query:   377 LEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGR 436
                 +  NEVT I V+ ACSH G V++G + F  M++ Y ++ + +HY C+VDML R+G+
Sbjct:   372 QRLKVWPNEVTFIGVILACSHSGRVDEGRKYFSLMRDMYNIEPNIKHYGCMVDMLGRAGQ 431

Query:   437 MVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI 496
             + EA+  +  + +     +       C I+G  +L     E+   M   +   +V+LSNI
Sbjct:   432 LEEAFMFVESMKIEPNAIVWRTLLGACKIYGNVELGKYANEKLLSMRKDESGDYVLLSNI 491

Query:   497 CAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRNE 532
              A+ G+W   + +RK+  +  V+K  G S +E+ ++
Sbjct:   492 YASTGQWDGVQKVRKMFDDTRVKKPTGVSLIEEDDD 527

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2013079 AT1G19720 "AT1G19720" [Arabidopsis thaliana (taxid:3702)]

 Score = 665 (239.2 bits), Expect = 2.5e-65, P = 2.5e-65
 Identities = 162/487 (33%), Positives = 256/487 (52%)

Query:    53 LVGVYAGCGDVNSARLVFDKIPNPNVF--MLNWMVMASAFTGNFQ--EAIGYFSLMREFI 108
             L+G Y   G  ++A  +  K+    +   +  W  M S    N    +A+  F  M    
Sbjct:   288 LIGGYNQLGKCDAAMDLMQKMETFGITADVFTWTAMISGLIHNGMRYQALDMFRKMFLAG 347

Query:   109 YRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSAR 168
                N  T    + AC  L  I +G +VH++A +MGF +DV VGN+L+DMYSKCG L  AR
Sbjct:   348 VVPNAVTIMSAVSACSCLKVINQGSEVHSIAVKMGFIDDVLVGNSLVDMYSKCGKLEDAR 407

Query:   169 RVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRG 228
             +VF  +  +DV +W SMI+GYC      +A  LF RM+   L PN  T+N +I+ Y + G
Sbjct:   408 KVFDSVKNKDVYTWNSMITGYCQAGYCGKAYELFTRMQDANLRPNIITWNTMISGYIKNG 467

Query:   229 DSNAAFAFFSRMTAEGFVP-DLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTV 287
             D   A   F RM  +G V  +  TWN +I+G+ Q+ +++EAL+LF+ M  S   PN+VT+
Sbjct:   468 DEGEAMDLFQRMEKDGKVQRNTATWNLIIAGYIQNGKKDEALELFRKMQFSRFMPNSVTI 527

Query:   288 TGVLQA-GGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITR 346
               +L A   L G+  + REIH  V R  L       +AL D Y+K G ++ +RT+F    
Sbjct:   528 LSLLPACANLLGAKMV-REIHGCVLRRNLDAIHAVKNALTDTYAKSGDIEYSRTIFLGME 586

Query:   347 IKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHG--GLVEKG 404
              K++ +WN++IG Y  HG    ++ LF +M  +G+  N  TL S++ A  HG  G V++G
Sbjct:   587 TKDIITWNSLIGGYVLHGSYGPALALFNQMKTQGITPNRGTLSSIILA--HGLMGNVDEG 644

Query:   405 LEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCN 464
              ++F S+   Y +  + EH + +V +  R+ R+ EA   ++++ +     +  +F  GC 
Sbjct:   645 KKVFYSIANDYHIIPALEHCSAMVYLYGRANRLEEALQFIQEMNIQSETPIWESFLTGCR 704

Query:   465 IHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGF 524
             IHG  D+A+   E  F +         ++S I A   +   +    K  ++  ++K  G 
Sbjct:   705 IHGDIDMAIHAAENLFSLEPENTATESIVSQIYALGAKLGRSLEGNKPRRDNLLKKPLGQ 764

Query:   525 SRVEKRN 531
             S +E RN
Sbjct:   765 SWIEVRN 771

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

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

 Score = 660 (237.4 bits), Expect = 8.5e-65, P = 8.5e-65
 Identities = 166/532 (31%), Positives = 283/532 (53%)

Query:    24 MKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNW 83
             ++++ L + +++  ++   D  + S  + L G YA  G V+ AR VFD++P  N    N 
Sbjct:   137 VRNRNLGKARELFEIMPERD--VCSWNTMLSG-YAQNGCVDDARSVFDRMPEKNDVSWNA 193

Query:    84 MVMASAFTGNFQEAIGYFS------------LMREFIYR-----CNKFTFSIVLKACVGL 126
             ++ A       +EA   F             L+  F+ +       +F  S+ ++  V  
Sbjct:   194 LLSAYVQNSKMEEACMLFKSRENWALVSWNCLLGGFVKKKKIVEARQFFDSMNVRDVVSW 253

Query:   127 LDIKKG-KQVHAV--ATQMGFEN---DVSVGNALIDMYSKCGLLCSARRVFHGMFERDVV 180
               I  G  Q   +  A Q+  E+   DV    A++  Y +  ++  AR +F  M ER+ V
Sbjct:   254 NTIITGYAQSGKIDEARQLFDESPVQDVFTWTAMVSGYIQNRMVEEARELFDKMPERNEV 313

Query:   181 SWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRM 240
             SW +M++GY    +++ A  LF+ M       N  T+N +I  YA+ G  + A   F +M
Sbjct:   314 SWNAMLAGYVQGERMEMAKELFDVMPCR----NVSTWNTMITGYAQCGKISEAKNLFDKM 369

Query:   241 TAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSI 300
                    D V+W AMI+G++QS    EAL+LF  M   G + N  + +  L       ++
Sbjct:   370 PKR----DPVSWAAMIAGYSQSGHSFEALRLFVQMEREGGRLNRSSFSSALSTCADVVAL 425

Query:   301 QIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCY 360
             ++G+++H  + + G     F G+AL+ MY KCGS+++A  LF+    K++ SWN MI  Y
Sbjct:   426 ELGKQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIVSWNTMIAGY 485

Query:   361 GKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS 420
              +HG  + ++  FE M  EG++ ++ T+++VLSACSH GLV+KG + F +M + YGV  +
Sbjct:   486 SRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGVMPN 545

Query:   421 KEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFF 480
              +HYAC+VD+L R+G + +A++L++ +P     ++ G       +HG  +LA T  ++ F
Sbjct:   546 SQHYACMVDLLGRAGLLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGNTELAETAADKIF 605

Query:   481 EMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRNE 532
              M       +V+LSN+ A+ G W +   LR  M++K V+K PG+S +E +N+
Sbjct:   606 AMEPENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKVPGYSWIEIQNK 657

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2198546 AT1G20230 "AT1G20230" [Arabidopsis thaliana (taxid:3702)]

 Score = 658 (236.7 bits), Expect = 1.4e-64, P = 1.4e-64
 Identities = 151/515 (29%), Positives = 271/515 (52%)

Query:    23 CMKSKALRQGKQVHALLCTNDLNIFS-LKSKLVGVYAGCGDVNSARLVFDKIPNPNVFML 81
             C +  A + GKQ+H + C + L++ + ++  +  +Y  CG +  AR VFD++ + +V   
Sbjct:   126 CAELSAFKVGKQIHCVSCVSGLDMDAFVQGSMFHMYMRCGRMGDARKVFDRMSDKDVVTC 185

Query:    82 NWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQ 141
             + ++ A A  G  +E +   S M       N  +++ +L         K+   +      
Sbjct:   186 SALLCAYARKGCLEEVVRILSEMESSGIEANIVSWNGILSGFNRSGYHKEAVVMFQKIHH 245

Query:   142 MGFENDVSVGNALIDMYSKCGLLCSARRVFHGM-----FERDVVSWTSMISGYCNVSKVD 196
             +GF  D    ++++       +L +  R+ HG        +D    ++MI  Y     V 
Sbjct:   246 LGFCPDQVTVSSVLPSVGDSEML-NMGRLIHGYVIKQGLLKDKCVISAMIDMYGKSGHVY 304

Query:   197 EAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMI 256
               + LF + ++  +E      NA I   +R G  + A   F     +    ++V+W ++I
Sbjct:   305 GIISLFNQFEM--MEAG--VCNAYITGLSRNGLVDKALEMFELFKEQTMELNVVSWTSII 360

Query:   257 SGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLH 316
             +G AQ+ ++ EAL+LF+ M V+G+KPN+VT+  +L A G   ++  GR  H    R+ L 
Sbjct:   361 AGCAQNGKDIEALELFREMQVAGVKPNHVTIPSMLPACGNIAALGHGRSTHGFAVRVHLL 420

Query:   317 IDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERM 376
              +V  GSALIDMY+KCG +  ++ +F +   KN+  WN+++  +  HG     + +FE +
Sbjct:   421 DNVHVGSALIDMYAKCGRINLSQIVFNMMPTKNLVCWNSLMNGFSMHGKAKEVMSIFESL 480

Query:   377 LEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGR 436
             +   ++ + ++  S+LSAC   GL ++G + F+ M E YG+K   EHY+C+V++L R+G+
Sbjct:   481 MRTRLKPDFISFTSLLSACGQVGLTDEGWKYFKMMSEEYGIKPRLEHYSCMVNLLGRAGK 540

Query:   437 MVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI 496
             + EAYDL++++P    + + GA  N C +    DLA    E+ F +    P  +V+LSNI
Sbjct:   541 LQEAYDLIKEMPFEPDSCVWGALLNSCRLQNNVDLAEIAAEKLFHLEPENPGTYVLLSNI 600

Query:   497 CAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRN 531
              AA G W E +++R  M+   ++K PG S ++ +N
Sbjct:   601 YAAKGMWTEVDSIRNKMESLGLKKNPGCSWIQVKN 635

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_LG_I000379 hypothetical protein (599 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

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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	544
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-107
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-87
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-58
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-44
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-36
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-35
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-18
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	3e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	5e-05
pfam01535	31	pfam01535, PPR, PPR repeat	5e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.004

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

 Score =  339 bits (870), Expect = e-107
 Identities = 180/542 (33%), Positives = 286/542 (52%), Gaps = 32/542 (5%)

Query: 18  CLLGKCMKSKALRQGKQVHALLCTNDLNI-FSLKSKLVGVYAGCGDVNSARLVFDKIPNP 76
           C+L  C     L +G++VHA +      +   + + L+ +Y  CGDV SARLVFD++P  
Sbjct: 192 CVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR 251

Query: 77  NVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVH 136
           +    N M+      G   E +  F  MRE     +  T + V+ AC  L D + G+++H
Sbjct: 252 DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMH 311

Query: 137 AVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVD 196
               + GF  DVSV N+LI MY   G    A +VF  M  +D VSWT+MISGY      D
Sbjct: 312 GYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPD 371

Query: 197 EAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMI 256
           +A+  +  M+ + + P++ T  +++++ A  GD +           +G +  +V  NA+I
Sbjct: 372 KALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALI 431

Query: 257 SGFAQSKRENEALKLFKGM----------LVSG--------------------IKPNNVT 286
             +++ K  ++AL++F  +          +++G                    +KPN+VT
Sbjct: 432 EMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVT 491

Query: 287 VTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITR 346
           +   L A    G++  G+EIHA V R G+  D F  +AL+D+Y +CG +  A   F    
Sbjct: 492 LIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHE 551

Query: 347 IKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLE 406
            K+V SWN ++  Y  HG    ++ELF RM+E G+  +EVT IS+L ACS  G+V +GLE
Sbjct: 552 -KDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLE 610

Query: 407 IFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIH 466
            F SM+E+Y +  + +HYACVVD+L R+G++ EAY+ + ++P+    ++ GA  N C IH
Sbjct: 611 YFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIH 670

Query: 467 GRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSR 526
              +L     +  FE+       +++L N+ A  G+W E   +RK M+E  +   PG S 
Sbjct: 671 RHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSW 730

Query: 527 VE 528
           VE
Sbjct: 731 VE 732

Length = 857

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

 Score =  284 bits (728), Expect = 1e-87
 Identities = 147/480 (30%), Positives = 241/480 (50%), Gaps = 40/480 (8%)

Query: 89  AFTGNFQEAIGYFSLMR-EFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFEND 147
              G  +EA+  F ++     +     T+  +++AC+ L  I+  K V+      GFE D
Sbjct: 98  VACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPD 157

Query: 148 VSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKL 207
             + N ++ M+ KCG+L  ARR+F  M ER++ SW ++I G  +     EA  LF  M  
Sbjct: 158 QYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWE 217

Query: 208 EGLEP-----------------------------------NQFTYNAIIASYARRGDSNA 232
           +G +                                    + F   A+I  Y++ GD   
Sbjct: 218 DGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIED 277

Query: 233 AFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQ 292
           A   F  M  +      V WN+M++G+A      EAL L+  M  SG+  +  T + +++
Sbjct: 278 ARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIR 333

Query: 293 AGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVAS 352
                  ++  ++ HA + R G  +D+   +AL+D+YSK G ++DAR +F+    KN+ S
Sbjct: 334 IFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLIS 393

Query: 353 WNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMK 412
           WNA+I  YG HG    ++E+FERM+ EG+  N VT ++VLSAC + GL E+G EIF+SM 
Sbjct: 394 WNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMS 453

Query: 413 ERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLA 472
           E + +K    HYAC++++L R G + EAY ++R+ P   T +M  A    C IH   +L 
Sbjct: 454 ENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELG 513

Query: 473 VTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRNE 532
               E+ + MG  K + +V+L N+  + G   EA  + + +K K +   P  + +E + +
Sbjct: 514 RLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQ 573

Length = 697

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

 Score =  208 bits (531), Expect = 1e-58
 Identities = 148/515 (28%), Positives = 238/515 (46%), Gaps = 43/515 (8%)

Query: 19  LLGKCMKSKALRQGKQVHALLCTNDLNIFSLK--SKLVGVYAGCGDVNSARLVFDKIPNP 76
           L   C   +A+ +G +V +    +      ++  + ++ ++   G++  A  VF K+P  
Sbjct: 92  LFRLCEWKRAVEEGSRVCSRA-LSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPER 150

Query: 77  NVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVH 136
           ++F  N +V   A  G F EA+  +  M     R + +TF  VL+ C G+ D+ +G++VH
Sbjct: 151 DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVH 210

Query: 137 AVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVD 196
           A   + GFE DV V NALI MY KCG + SAR VF  M  RD +SW +MISGY    +  
Sbjct: 211 AHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECL 270

Query: 197 EAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMI 256
           E + LF  M+   ++P+  T  ++I++    GD          +   GF  D+   N++I
Sbjct: 271 EGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLI 330

Query: 257 SGFAQSKRENEALKLFKGM----------LVSG---------------------IKPNNV 285
             +       EA K+F  M          ++SG                     + P+ +
Sbjct: 331 QMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEI 390

Query: 286 TVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEIT 345
           T+  VL A    G + +G ++H L  R GL   V   +ALI+MYSKC  +  A  +F   
Sbjct: 391 TIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNI 450

Query: 346 RIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGL 405
             K+V SW ++I     +     ++  F +ML   ++ N VTLI+ LSAC+  G +  G 
Sbjct: 451 PEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGK 509

Query: 406 EIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVT--NSMAGAFRNGC 463
           EI  +   R G+         ++D+  R GRM  A++        V   N +   +    
Sbjct: 510 EI-HAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVA-- 566

Query: 464 NIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA 498
             HG+  +AV +     E G+  PD    +S +CA
Sbjct: 567 --HGKGSMAVELFNRMVESGVN-PDEVTFISLLCA 598

Length = 857

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

 Score =  165 bits (420), Expect = 5e-44
 Identities = 127/467 (27%), Positives = 209/467 (44%), Gaps = 77/467 (16%)

Query: 11  LSVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNI-FSLKSKLVGVYAGCGDVNSARLV 69
           L  +  D L+  C+  K++R  K V+  + ++       + ++++ ++  CG +  AR +
Sbjct: 121 LPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRL 180

Query: 70  FDKIPNPNVFMLNWMVMASAFT--GNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLL 127
           FD++P  N+   +W  +       GN++EA   F  M E        TF ++L+A  GL 
Sbjct: 181 FDEMPERNLA--SWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLG 238

Query: 128 DIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMIS 187
             + G+Q+H    + G   D  V  ALIDMYSKCG +  AR VF GM E+  V+W SM++
Sbjct: 239 SARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLA 298

Query: 188 GYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAII----------------ASYARRG--- 228
           GY      +EA+ L+  M+  G+  +QFT++ +I                A   R G   
Sbjct: 299 GYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPL 358

Query: 229 ---DSNAAFAFFS---RMTAEGFVPD------LVTWNAMISGFAQSKRENEALKLFKGML 276
               + A    +S   RM     V D      L++WNA+I+G+    R  +A+++F+ M+
Sbjct: 359 DIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMI 418

Query: 277 VSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLK 336
             G+ PN+VT   VL A   +G  + G EI   +                          
Sbjct: 419 AEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMS------------------------- 453

Query: 337 DARTLFEITRIKNVASWNA-MIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSAC 395
                 E  RIK  A   A MI   G+ G++D +  +         RA     +++ +A 
Sbjct: 454 ------ENHRIKPRAMHYACMIELLGREGLLDEAYAMIR-------RAPFKPTVNMWAAL 500

Query: 396 SHGGLVEKGLEIFRSMKER-YGVKISK-EHYACVVDMLCRSGRMVEA 440
                + K LE+ R   E+ YG+   K  +Y  ++++   SGR  EA
Sbjct: 501 LTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEA 547

Length = 697

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

 Score =  143 bits (361), Expect = 3e-36
 Identities = 90/335 (26%), Positives = 158/335 (47%), Gaps = 15/335 (4%)

Query: 28  ALRQGKQVHALLCTNDLNIFS---LKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWM 84
           + R G+Q+H   C     +     +   L+ +Y+ CGD+  AR VFD +P       N M
Sbjct: 239 SARAGQQLHC--CVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSM 296

Query: 85  VMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGF 144
           +   A  G  +EA+  +  MR+     ++FTFSI+++    L  ++  KQ HA   + GF
Sbjct: 297 LAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF 356

Query: 145 ENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFER 204
             D+    AL+D+YSK G +  AR VF  M  ++++SW ++I+GY N  +  +AV +FER
Sbjct: 357 PLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFER 416

Query: 205 MKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTA-EGFVPDLVTWNAMISGFAQSK 263
           M  EG+ PN  T+ A++++    G S   +  F  M+      P  + +  MI    +  
Sbjct: 417 MIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREG 476

Query: 264 RENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGS 323
             +EA  + +    +  KP       +L A  +  ++++GR     +  MG    +    
Sbjct: 477 LLDEAYAMIRR---APFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPE-KLNNYV 532

Query: 324 ALIDMYSKCGSLKDARTLFEI-----TRIKNVASW 353
            L+++Y+  G   +A  + E        +    +W
Sbjct: 533 VLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTW 567

Length = 697

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

 Score =  141 bits (357), Expect = 1e-35
 Identities = 89/371 (23%), Positives = 163/371 (43%), Gaps = 20/371 (5%)

Query: 155 IDMYSKCGLLCSARRVFHGM-----FERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEG 209
           I+    CG    A  +F  +     F     ++ +++     +  +     ++  ++  G
Sbjct: 94  IEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSG 153

Query: 210 LEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEAL 269
            EP+Q+  N ++  + + G    A   F  M       +L +W  +I G   +    EA 
Sbjct: 154 FEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAF 209

Query: 270 KLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMY 329
            LF+ M   G      T   +L+A    GS + G+++H  V + G+  D F   ALIDMY
Sbjct: 210 ALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMY 269

Query: 330 SKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLI 389
           SKCG ++DAR +F+    K   +WN+M+  Y  HG  + ++ L+  M + G+  ++ T  
Sbjct: 270 SKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFS 329

Query: 390 SVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP- 448
            ++   S   L+E   +    +  R G  +       +VD+  + GRM +A ++  ++P 
Sbjct: 330 IMIRIFSRLALLEHAKQAHAGLI-RTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR 388

Query: 449 --MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD--GFVMLSNICAADGEWH 504
             +   N++   + N    HGR   AV M E     G+  P+   F+ + + C   G   
Sbjct: 389 KNLISWNALIAGYGN----HGRGTKAVEMFERMIAEGV-APNHVTFLAVLSACRYSGLSE 443

Query: 505 EAENLRKIMKE 515
           +   + + M E
Sbjct: 444 QGWEIFQSMSE 454

Length = 697

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

 Score = 88.4 bits (219), Expect = 3e-18
 Identities = 75/310 (24%), Positives = 145/310 (46%), Gaps = 27/310 (8%)

Query: 167 ARRVFHGMFER----DVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIA 222
           A RV   + E     D   +T++IS      KVD    +F  M   G+E N  T+ A+I 
Sbjct: 456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALID 515

Query: 223 SYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSG--I 280
             AR G    AF  +  M ++   PD V +NA+IS   QS   + A  +   M      I
Sbjct: 516 GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPI 575

Query: 281 KPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLH--IDVFTGSALIDMYSKCGSLKDA 338
            P+++TV  +++A    G +   +E++ ++    +    +V+T    ++  S+ G    A
Sbjct: 576 DPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYT--IAVNSCSQKGDWDFA 633

Query: 339 RTLFEITRIKNVAS----WNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSA 394
            ++++  + K V      ++A++   G  G +D + E+ +   ++G++   V+  S++ A
Sbjct: 634 LSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGA 693

Query: 395 CSHGGLVEKGLEIF---RSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQV---- 447
           CS+    +K LE++   +S+K R  V         ++  LC   ++ +A ++L ++    
Sbjct: 694 CSNAKNWKKALELYEDIKSIKLRPTVST----MNALITALCEGNQLPKALEVLSEMKRLG 749

Query: 448 --PMYVTNSM 455
             P  +T S+
Sbjct: 750 LCPNTITYSI 759

Length = 1060

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

 Score = 65.5 bits (161), Expect = 7e-14
 Identities = 21/49 (42%), Positives = 33/49 (67%)

Query: 178 DVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYAR 226
           DVV++ ++I GYC   KV+EA+ LF  MK  G++PN +TY+ +I    +
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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 = 69.1 bits (169), Expect = 3e-12
 Identities = 51/232 (21%), Positives = 97/232 (41%), Gaps = 42/232 (18%)

Query: 210 LEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEAL 269
             P   T+N +++  A   D + A      +   G   D   +  +IS  A+S + +   
Sbjct: 433 RNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMF 492

Query: 270 KLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMY 329
           ++F  M+ +G++ N                                   V T  ALID  
Sbjct: 493 EVFHEMVNAGVEAN-----------------------------------VHTFGALIDGC 517

Query: 330 SKCGSLKDARTLFEITRIKNVAS----WNAMIGCYGKHGMVDSSIELFERMLEEG--MRA 383
           ++ G +  A   + I R KNV      +NA+I   G+ G VD + ++   M  E   +  
Sbjct: 518 ARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDP 577

Query: 384 NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSG 435
           + +T+ +++ AC++ G V++  E+++ + E Y +K + E Y   V+   + G
Sbjct: 578 DHITVGALMKACANAGQVDRAKEVYQMIHE-YNIKGTPEVYTIAVNSCSQKG 628

Length = 1060

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

 Score = 60.9 bits (149), Expect = 3e-12
 Identities = 15/50 (30%), Positives = 26/50 (52%)

Query: 212 PNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQ 261
           P+  TYN +I  Y ++G    A   F+ M   G  P++ T++ +I G  +
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 = 55.5 bits (135), Expect = 2e-10
 Identities = 20/47 (42%), Positives = 29/47 (61%)

Query: 247 PDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQA 293
           PD+VT+N +I G+ +  +  EALKLF  M   GIKPN  T + ++  
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG 47

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 = 4e-10
 Identities = 55/290 (18%), Positives = 135/290 (46%), Gaps = 16/290 (5%)

Query: 181 SWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRM 240
           ++  ++S   +   +D A+ +   ++  GL+ +   Y  +I++ A+ G  +A F  F  M
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM 498

Query: 241 TAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSI 300
              G   ++ T+ A+I G A++ +  +A   +  M    +KP+ V    ++ A G +G++
Sbjct: 499 VNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAV 558

Query: 301 QIGREIHALVCRMG-----LHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNV----A 351
               ++ A    M      +  D  T  AL+   +  G +  A+ ++++    N+     
Sbjct: 559 DRAFDVLA---EMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPE 615

Query: 352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSM 411
            +   +    + G  D ++ +++ M ++G++ +EV   +++    H G ++K  EI +  
Sbjct: 616 VYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDA 675

Query: 412 KERYGVKISKEHYACVVDMLCRSG---RMVEAYDLLRQVPMYVTNSMAGA 458
           +++ G+K+    Y+ ++     +    + +E Y+ ++ + +  T S   A
Sbjct: 676 RKQ-GIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNA 724

Length = 1060

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

 Score = 47.4 bits (114), Expect = 2e-07
 Identities = 13/50 (26%), Positives = 26/50 (52%)

Query: 348 KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSH 397
            +V ++N +I  Y K G V+ +++LF  M + G++ N  T   ++     
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 45.4 bits (109), Expect = 7e-07
 Identities = 13/33 (39%), Positives = 21/33 (63%)

Query: 174 MFERDVVSWTSMISGYCNVSKVDEAVVLFERMK 206
             + DVV++ ++I G C   +VDEAV 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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 51.4 bits (123), Expect = 1e-06
 Identities = 68/348 (19%), Positives = 138/348 (39%), Gaps = 58/348 (16%)

Query: 8   INNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNI-FSLKSKLVGVYAGCGDVNSA 66
           I N +++  + L+  C  S+ +    +V  L+    L     L + L+   A  G V++ 
Sbjct: 432 IRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAM 491

Query: 67  RLVFDKIPN----PNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKA 122
             VF ++ N     NV     ++   A  G   +A G + +MR    + ++  F+ ++ A
Sbjct: 492 FEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISA 551

Query: 123 C--VGLLDIKKGKQVHAVATQMGFE------NDVSVGNALIDMYSKCGLLCSARRVFHGM 174
           C   G +D     +   V  +M  E      + ++VG AL+   +  G +  A+ V+  +
Sbjct: 552 CGQSGAVD-----RAFDVLAEMKAETHPIDPDHITVG-ALMKACANAGQVDRAKEVYQMI 605

Query: 175 FERDVVS----WTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDS 230
            E ++      +T  ++        D A+ +++ MK +G++P++  ++A++      GD 
Sbjct: 606 HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDL 665

Query: 231 NAAFAFFSRMTAEGFVPDLV-----------------------------------TWNAM 255
           + AF        +G     V                                   T NA+
Sbjct: 666 DKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNAL 725

Query: 256 ISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIG 303
           I+   +  +  +AL++   M   G+ PN +T + +L A        +G
Sbjct: 726 ITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVG 773

Length = 1060

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

 Score = 49.9 bits (119), Expect = 3e-06
 Identities = 46/204 (22%), Positives = 83/204 (40%), Gaps = 10/204 (4%)

Query: 87  ASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFEN 146
           A A  G    A   + ++ E+  +     ++I + +C    D      ++    + G + 
Sbjct: 588 ACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKP 647

Query: 147 DVSVGNALIDMYSKCGLLCSARRVFHGM----FERDVVSWTSMISGYCNVSKVDEAVVLF 202
           D    +AL+D+    G L  A  +         +   VS++S++    N     +A+ L+
Sbjct: 648 DEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELY 707

Query: 203 ERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQS 262
           E +K   L P   T NA+I +         A    S M   G  P+ +T++ +      S
Sbjct: 708 EDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSIL---LVAS 764

Query: 263 KRENEA---LKLFKGMLVSGIKPN 283
           +R+++A   L L       GIKPN
Sbjct: 765 ERKDDADVGLDLLSQAKEDGIKPN 788

Length = 1060

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

 Score = 43.2 bits (103), Expect = 4e-06
 Identities = 16/34 (47%), Positives = 23/34 (67%)

Query: 250 VTWNAMISGFAQSKRENEALKLFKGMLVSGIKPN 283
           VT+N +I G  ++ R  EAL+LFK M   GI+P+
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 48.7 bits (116), Expect = 6e-06
 Identities = 37/201 (18%), Positives = 76/201 (37%), Gaps = 35/201 (17%)

Query: 61  GDVNSARLVFDKIPN----PNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTF 116
           GD + A  ++D +      P+    + +V  +   G+  +A       R+   +    ++
Sbjct: 628 GDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSY 687

Query: 117 SIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFE 176
           S ++ AC    + KK  +++     +     VS  NALI                     
Sbjct: 688 SSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALI--------------------- 726

Query: 177 RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAF 236
                     +  C  +++ +A+ +   MK  GL PN  TY+ ++ +  R+ D++     
Sbjct: 727 ----------TALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDL 776

Query: 237 FSRMTAEGFVPDLVTWNAMIS 257
            S+   +G  P+LV    +  
Sbjct: 777 LSQAKEDGIKPNLVMCRCITG 797

Length = 1060

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

 Score = 42.4 bits (101), Expect = 1e-05
 Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 4/44 (9%)

Query: 152 NALIDMYSKCGLLCSARRVFHGMFER----DVVSWTSMISGYCN 191
           N LID Y K G +  A ++F+ M +R    +V +++ +I G C 
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 41.7 bits (99), Expect = 1e-05
 Identities = 14/34 (41%), Positives = 24/34 (70%)

Query: 180 VSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPN 213
           V++ ++I G C   +V+EA+ LF+ MK  G+EP+
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 42.1 bits (100), Expect = 1e-05
 Identities = 15/31 (48%), Positives = 24/31 (77%)

Query: 180 VSWTSMISGYCNVSKVDEAVVLFERMKLEGL 210
           V++ S+ISGYC   K++EA+ LF+ MK +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|144943 pfam01535, PPR, PPR repeat

 Score = 41.7 bits (99), Expect = 1e-05
 Identities = 11/30 (36%), Positives = 22/30 (73%)

Query: 352 SWNAMIGCYGKHGMVDSSIELFERMLEEGM 381
           ++N++I  Y K G ++ ++ELF+ M E+G+
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 41.2 bits (98), Expect = 2e-05
 Identities = 13/32 (40%), Positives = 21/32 (65%)

Query: 244 GFVPDLVTWNAMISGFAQSKRENEALKLFKGM 275
           G  PD+VT+N +I G  ++ R +EA++L   M
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 41.3 bits (98), Expect = 2e-05
 Identities = 11/34 (32%), Positives = 20/34 (58%)

Query: 352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANE 385
           ++N +I    K G V+ ++ELF+ M E G+  + 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 40.9 bits (97), Expect = 3e-05
 Identities = 11/34 (32%), Positives = 13/34 (38%)

Query: 215 FTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPD 248
            TYN +I    + G    A   F  M   G  PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 41.0 bits (97), Expect = 3e-05
 Identities = 13/33 (39%), Positives = 18/33 (54%)

Query: 215 FTYNAIIASYARRGDSNAAFAFFSRMTAEGFVP 247
            TYNA++ + A+ GD + A A    M A G  P
Sbjct: 2   ETYNALLLALAKAGDPDLALAVLEEMKASGLKP 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 40.0 bits (95), Expect = 5e-05
 Identities = 11/32 (34%), Positives = 15/32 (46%)

Query: 209 GLEPNQFTYNAIIASYARRGDSNAAFAFFSRM 240
           GL+P+  TYN +I    R G  + A      M
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 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|144943 pfam01535, PPR, PPR repeat

 Score = 39.7 bits (94), Expect = 5e-05
 Identities = 14/31 (45%), Positives = 23/31 (74%)

Query: 250 VTWNAMISGFAQSKRENEALKLFKGMLVSGI 280
           VT+N++ISG+ ++ +  EAL+LFK 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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 34.8 bits (81), Expect = 0.004
 Identities = 8/34 (23%), Positives = 18/34 (52%)

Query: 350 VASWNAMIGCYGKHGMVDSSIELFERMLEEGMRA 383
           + ++NA++    K G  D ++ + E M   G++ 
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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	544
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.97
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.96
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.94
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.94
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.93
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.93
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.91
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.91
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.91
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.91
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.91
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.9
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.89
PRK14574	822	hmsH outer membrane protein; Provisional	99.89
PRK14574	822	hmsH outer membrane protein; Provisional	99.89
KOG2003	840	consensus TPR repeat-containing protein [General f	99.87
KOG2076	895	consensus RNA polymerase III transcription factor	99.86
KOG2076	895	consensus RNA polymerase III transcription factor	99.83
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.83
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.82
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.81
KOG2003	840	consensus TPR repeat-containing protein [General f	99.8
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.79
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.79
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.78
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.78
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.76
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.74
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.7
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.7
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.69
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.68
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.68
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.66
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.66
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.66
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.65
KOG1126	638	consensus DNA-binding cell division cycle control	99.64
KOG1126	638	consensus DNA-binding cell division cycle control	99.64
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.62
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.62
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.61
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.6
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.6
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.6
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.59
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.59
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.57
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.53
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.52
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.5
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.49
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.48
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.48
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.48
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.48
KOG1129	478	consensus TPR repeat-containing protein [General f	99.46
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.45
PRK12370	553	invasion protein regulator; Provisional	99.45
PRK12370	553	invasion protein regulator; Provisional	99.42
KOG1129	478	consensus TPR repeat-containing protein [General f	99.4
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.4
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.39
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.38
PRK11189	296	lipoprotein NlpI; Provisional	99.38
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.38
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.37
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.34
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.33
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.33
PRK11189	296	lipoprotein NlpI; Provisional	99.31
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.28
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.27
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.27
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.26
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.26
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.24
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.23
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.23
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.21
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.21
PF13041	50	PPR_2: PPR repeat family	99.2
PF13041	50	PPR_2: PPR repeat family	99.19
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.19
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.18
KOG1125	579	consensus TPR repeat-containing protein [General f	99.15
PRK04841	903	transcriptional regulator MalT; Provisional	99.13
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.11
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.11
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.1
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.09
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.05
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.04
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.03
PRK15359	144	type III secretion system chaperone protein SscB;	99.02
PRK04841	903	transcriptional regulator MalT; Provisional	98.98
PRK15359	144	type III secretion system chaperone protein SscB;	98.98
KOG1125	579	consensus TPR repeat-containing protein [General f	98.97
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.97
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.91
PLN02789	320	farnesyltranstransferase	98.91
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.9
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.89
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.89
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.86
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.85
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.84
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.83
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.83
PLN02789	320	farnesyltranstransferase	98.82
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.82
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.79
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.78
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.76
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.76
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.75
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.73
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.73
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.72
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.71
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.64
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.63
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.56
PF12854	34	PPR_1: PPR repeat	98.53
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.53
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.52
PF12854	34	PPR_1: PPR repeat	98.52
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.5
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.46
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.42
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.42
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.41
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.4
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.38
KOG0553	304	consensus TPR repeat-containing protein [General f	98.36
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.36
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.35
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.33
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.32
KOG0553	304	consensus TPR repeat-containing protein [General f	98.27
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.25
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.25
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.24
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.21
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.21
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.17
PF13371	73	TPR_9: Tetratricopeptide repeat	98.14
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.14
PRK15331	165	chaperone protein SicA; Provisional	98.14
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.13
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.12
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.05
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.03
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.02
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.01
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.01
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.98
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.97
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.95
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.94
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.94
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.93
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.92
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.91
PF13431	34	TPR_17: Tetratricopeptide repeat	97.9
PRK10803	263	tol-pal system protein YbgF; Provisional	97.9
KOG1258	577	consensus mRNA processing protein [RNA processing	97.9
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.89
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.88
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.87
PF12688	120	TPR_5: Tetratrico peptide repeat	97.87
PF13428	44	TPR_14: Tetratricopeptide repeat	97.83
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.82
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.81
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.81
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.8
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.79
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.76
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.76
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.75
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.72
PRK10803	263	tol-pal system protein YbgF; Provisional	97.72
PF12688	120	TPR_5: Tetratrico peptide repeat	97.71
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.7
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.69
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.67
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.67
PF13371	73	TPR_9: Tetratricopeptide repeat	97.65
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.63
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.6
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.6
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.59
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.55
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.54
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.53
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.53
PF13512	142	TPR_18: Tetratricopeptide repeat	97.53
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.53
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.51
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.43
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.42
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.42
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.39
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.36
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.34
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.3
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.28
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.26
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.23
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	97.22
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.21
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.2
PRK11906	458	transcriptional regulator; Provisional	97.19
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.14
COG3118	304	Thioredoxin domain-containing protein [Posttransla	97.13
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	97.09
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.06
COG3118	304	Thioredoxin domain-containing protein [Posttransla	97.05
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.03
KOG4555	175	consensus TPR repeat-containing protein [Function	97.0
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.96
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.93
PRK15331	165	chaperone protein SicA; Provisional	96.93
PRK11619	644	lytic murein transglycosylase; Provisional	96.92
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.92
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.91
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.9
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.89
PRK11906	458	transcriptional regulator; Provisional	96.86
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.79
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.79
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	96.78
KOG1258	577	consensus mRNA processing protein [RNA processing	96.76
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.76
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.67
KOG1585	308	consensus Protein required for fusion of vesicles	96.67
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.65
KOG1550	552	consensus Extracellular protein SEL-1 and related	96.64
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	96.59
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.58
PF13512	142	TPR_18: Tetratricopeptide repeat	96.55
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	96.52
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.51
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.5
KOG1585	308	consensus Protein required for fusion of vesicles	96.48
PF13428	44	TPR_14: Tetratricopeptide repeat	96.46
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.35
KOG4234	271	consensus TPR repeat-containing protein [General f	96.33
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.32
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	96.26
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.23
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.13
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.06
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.94
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.79
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	95.78
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.77
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.77
KOG3941	406	consensus Intermediate in Toll signal transduction	95.76
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.74
KOG4555	175	consensus TPR repeat-containing protein [Function	95.72
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.61
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.5
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.45
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	95.43
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	95.43
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.38
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	95.33
KOG3941	406	consensus Intermediate in Toll signal transduction	95.3
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.27
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.19
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.16
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.11
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.06
PF13431	34	TPR_17: Tetratricopeptide repeat	94.96
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.95
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.91
KOG4648	536	consensus Uncharacterized conserved protein, conta	94.78
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.67
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	94.57
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	94.57
KOG4234	271	consensus TPR repeat-containing protein [General f	94.54
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.53
KOG1586	288	consensus Protein required for fusion of vesicles	94.29
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.22
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.18
KOG1586	288	consensus Protein required for fusion of vesicles	94.09
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	94.05
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.04
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.02
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	93.94
PRK09687	280	putative lyase; Provisional	93.87
PRK11619	644	lytic murein transglycosylase; Provisional	93.87
COG1747	711	Uncharacterized N-terminal domain of the transcrip	93.84
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	93.81
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	93.68
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.57
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.53
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.45
KOG4648	536	consensus Uncharacterized conserved protein, conta	93.44
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.43
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	93.27
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	93.24
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.91
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	92.81
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	92.79
KOG3364	149	consensus Membrane protein involved in organellar	92.52
PRK10941	269	hypothetical protein; Provisional	92.44
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	92.43
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	92.43
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	92.42
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	92.38
PF04910	360	Tcf25: Transcriptional repressor TCF25; InterPro:	92.14
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.0
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.93
KOG2471	696	consensus TPR repeat-containing protein [General f	91.88
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.73
KOG4507	886	consensus Uncharacterized conserved protein, conta	91.68
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	91.44
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	91.32
PRK12798	421	chemotaxis protein; Reviewed	91.05
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.89
COG3947	361	Response regulator containing CheY-like receiver a	90.8
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	90.77
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.67
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	90.61
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.28
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	90.26
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	90.14
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	90.05
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	89.99
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.96
KOG2300	629	consensus Uncharacterized conserved protein [Funct	89.68
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	89.57
KOG1550	552	consensus Extracellular protein SEL-1 and related	89.56
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	89.16
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	89.02
PRK09687	280	putative lyase; Provisional	88.84
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	88.84
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.43
PF04910	360	Tcf25: Transcriptional repressor TCF25; InterPro:	88.26
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	88.24
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	88.07
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	88.06
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	87.33
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	87.22
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	87.11
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	87.02
KOG4279	1226	consensus Serine/threonine protein kinase [Signal	86.97
COG1747	711	Uncharacterized N-terminal domain of the transcrip	86.92
COG3947	361	Response regulator containing CheY-like receiver a	86.49
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	86.28
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	86.02
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	85.81
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	85.72
KOG3824	472	consensus Huntingtin interacting protein HYPE [Gen	85.67
KOG4570	418	consensus Uncharacterized conserved protein [Funct	85.67
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	85.48
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	85.23
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	84.76
KOG0551	390	consensus Hsp90 co-chaperone CNS1 (contains TPR re	84.72
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	84.71
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	84.39
KOG4570	418	consensus Uncharacterized conserved protein [Funct	84.33
KOG3364	149	consensus Membrane protein involved in organellar	84.24
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	84.09
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	83.88
COG4455	273	ImpE Protein of avirulence locus involved in tempe	83.66
PF07720	36	TPR_3: Tetratricopeptide repeat; InterPro: IPR0117	83.6
COG4976	287	Predicted methyltransferase (contains TPR repeat)	83.45
PRK10941	269	hypothetical protein; Provisional	83.25
KOG2422	665	consensus Uncharacterized conserved protein [Funct	83.03
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	83.01
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	82.97
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	82.34
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	82.21
PF09477	116	Type_III_YscG: Bacterial type II secretion system	81.11
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	80.72

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=7.1e-76  Score=610.61  Aligned_cols=530  Identities=33%  Similarity=0.572  Sum_probs=482.9

Q ss_pred             CCcchHHHHHHHhhccchhhhhhHHhHHHhh-----------------------------------c--ccchhhHHHHH
Q 044352           11 LSVNYLDCLLGKCMKSKALRQGKQVHALLCT-----------------------------------N--DLNIFSLKSKL   53 (544)
Q Consensus        11 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----------------------------------~--~~~~~~~~~~l   53 (544)
                      ++..+|+.++.+|.+.|++++|..+|++|..                                   .  .|+.. +++.+
T Consensus       150 ~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~-~~n~L  228 (857)
T PLN03077        150 RDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVD-VVNAL  228 (857)
T ss_pred             CCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccc-hHhHH
Confidence            4455666666666666666666666665554                                   3  44566 77889


Q ss_pred             HHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHH
Q 044352           54 VGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGK  133 (544)
Q Consensus        54 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  133 (544)
                      +.+|++.|++++|..+|++++.+|..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+.+.|.
T Consensus       229 i~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~  308 (857)
T PLN03077        229 ITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGR  308 (857)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCC
Q 044352          134 QVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPN  213 (544)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  213 (544)
                      +++..+.+.|+.||..+|+.++.+|++.|++++|.++|++|..+|..+|++++.+|++.|++++|.++|++|.+.|+.||
T Consensus       309 ~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd  388 (857)
T PLN03077        309 EMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPD  388 (857)
T ss_pred             HHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHH----------------
Q 044352          214 QFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLV----------------  277 (544)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----------------  277 (544)
                      ..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+|+.|+..|++.|++++|.++|++|.+                
T Consensus       389 ~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~  468 (857)
T PLN03077        389 EITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLN  468 (857)
T ss_pred             ceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHC
Confidence            9999888888888888888888888887777777776666666666666666665555555432                


Q ss_pred             --------------cCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 044352          278 --------------SGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFE  343 (544)
Q Consensus       278 --------------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  343 (544)
                                    .++.||..||..++.+|++.|+.+.+.+++..+.+.|+.++..+++.++.+|+++|++++|.++|+
T Consensus       469 g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~  548 (857)
T PLN03077        469 NRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN  548 (857)
T ss_pred             CCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHH
Confidence                          246788888888888888888888888888888888888888899999999999999999999999


Q ss_pred             hcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhH
Q 044352          344 ITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEH  423 (544)
Q Consensus       344 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  423 (544)
                      .+ .+|..+|++++.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|.+.|.+++|.++|+.|.+.+++.|+..+
T Consensus       549 ~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~  627 (857)
T PLN03077        549 SH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKH  627 (857)
T ss_pred             hc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHH
Confidence            99 89999999999999999999999999999999999999999999999999999999999999999977799999999


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCCh
Q 044352          424 YACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEW  503 (544)
Q Consensus       424 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  503 (544)
                      |+.++.+|++.|++++|.+++++|+..|+..+|.+++.+|..+|+.+.++...+++++++|+++..|..++++|...|+|
T Consensus       628 y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~  707 (857)
T PLN03077        628 YACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKW  707 (857)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCCh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCCCceEEEecC---eeecccccccc
Q 044352          504 HEAENLRKIMKEKNVQKQPGFSRVEKRN---EFVEKEVQNES  542 (544)
Q Consensus       504 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~  542 (544)
                      ++|.++.+.|.++|++++|++||+++++   .|..||..++.
T Consensus       708 ~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~  749 (857)
T PLN03077        708 DEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQ  749 (857)
T ss_pred             HHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcc
Confidence            9999999999999999999999999999   99999998764

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

Probab=100.00  E-value=1.1e-68  Score=543.89  Aligned_cols=489  Identities=26%  Similarity=0.430  Sum_probs=473.1

Q ss_pred             chhhHHHHHHHHhhcCCChHHHHHHhccCC-----CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHH
Q 044352           45 NIFSLKSKLVGVYAGCGDVNSARLVFDKIP-----NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIV  119 (544)
Q Consensus        45 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l  119 (544)
                      +.. .++.++..+.+.|++++|.++|+.+.     .+|..+|+.++.++.+.++++.+.+++..|.+.|+.||..+|+.+
T Consensus        86 ~~~-~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~L  164 (697)
T PLN03081         86 SGV-SLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV  164 (697)
T ss_pred             Cce-eHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHH
Confidence            445 78999999999999999999999885     478899999999999999999999999999999999999999999


Q ss_pred             HHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccC----CChhhHHHHHHHHhccCCh
Q 044352          120 LKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFE----RDVVSWTSMISGYCNVSKV  195 (544)
Q Consensus       120 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~  195 (544)
                      +..|++.|+++.|.++|++|.    .||..+|+.++.+|++.|++++|.++|++|.+    ++..+|+.++.+++..|..
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~  240 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA  240 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcH
Confidence            999999999999999999995    58999999999999999999999999999944    7889999999999999999


Q ss_pred             hHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHH
Q 044352          196 DEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGM  275 (544)
Q Consensus       196 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  275 (544)
                      +.+.+++..+.+.|+.||..+|+.++.+|++.|++++|.++|++|.    .+|..+|+.++.+|++.|++++|+++|++|
T Consensus       241 ~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M  316 (697)
T PLN03081        241 RAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEM  316 (697)
T ss_pred             HHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999998    789999999999999999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHH
Q 044352          276 LVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNA  355 (544)
Q Consensus       276 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  355 (544)
                      .+.|+.||..||..++.+|++.|+++.|.+++..+.+.|+.++..+++.++.+|++.|++++|.++|+.|.++|..+|+.
T Consensus       317 ~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~  396 (697)
T PLN03081        317 RDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNA  396 (697)
T ss_pred             HHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC
Q 044352          356 MIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSG  435 (544)
Q Consensus       356 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  435 (544)
                      +|.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|.+.|.+++|.++|+.|.+.+++.|+..+|+.++.+|++.|
T Consensus       397 lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G  476 (697)
T PLN03081        397 LIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREG  476 (697)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999999999987799999999999999999999


Q ss_pred             CHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          436 RMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       436 ~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      ++++|.+++++++..|+..+|.+++.+|...|+.+.|..+++++++++|++...|..++.+|.+.|++++|.++++.|.+
T Consensus       477 ~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~  556 (697)
T PLN03081        477 LLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKR  556 (697)
T ss_pred             CHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCceEEEecC---eeecccccccc
Q 044352          516 KNVQKQPGFSRVEKRN---EFVEKEVQNES  542 (544)
Q Consensus       516 ~~~~~~~~~~~~~~~~---~~~~~~~~~~~  542 (544)
                      +|+++.|++||+++++   .|..||..++.
T Consensus       557 ~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~  586 (697)
T PLN03081        557 KGLSMHPACTWIEVKKQDHSFFSGDRLHPQ  586 (697)
T ss_pred             cCCccCCCeeEEEECCeEEEEccCCCCCcc
Confidence            9999999999999998   99999987764

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=7.4e-67  Score=543.16  Aligned_cols=507  Identities=29%  Similarity=0.470  Sum_probs=453.9

Q ss_pred             CCcchHHHHHHHhhccchhhhhhHHhHHHhhc--ccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHH
Q 044352           11 LSVNYLDCLLGKCMKSKALRQGKQVHALLCTN--DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMAS   88 (544)
Q Consensus        11 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~   88 (544)
                      |+..+|..++.+|...+.++.|.+++..+++.  .++.. .++.++..|++.|+++.|.++|++|+++|..+|+.+|.+|
T Consensus        84 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~  162 (857)
T PLN03077         84 VDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVR-LGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGY  162 (857)
T ss_pred             CChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCch-HHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHH
Confidence            34445666666666666666666666666666  45566 7789999999999999999999999999999999999999


Q ss_pred             HhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHH
Q 044352           89 AFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSAR  168 (544)
Q Consensus        89 ~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  168 (544)
                      ++.|++++|+++|++|...|+.||..||+.++.+|+..+++..+.+++..+.+.|+.|+..+++.++.+|++.|+++.|.
T Consensus       163 ~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~  242 (857)
T PLN03077        163 AKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSAR  242 (857)
T ss_pred             HhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCC---
Q 044352          169 RVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGF---  245 (544)
Q Consensus       169 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---  245 (544)
                      .+|++|..+|..+||+++.+|++.|++++|+++|.+|...|+.||..||+.++.+|++.|+.+.+.+++..|.+.|+   
T Consensus       243 ~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d  322 (857)
T PLN03077        243 LVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVD  322 (857)
T ss_pred             HHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccc
Confidence            99999999999999999999999999999999999999988888877776666555555544444444444444443   


Q ss_pred             ----------------------------CCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhcc
Q 044352          246 ----------------------------VPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLT  297 (544)
Q Consensus       246 ----------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  297 (544)
                                                  .||..+|+.++.+|++.|++++|+++|++|.+.|+.||..||..++.+|++.
T Consensus       323 ~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~  402 (857)
T PLN03077        323 VSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACL  402 (857)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhcc
Confidence                                        4556667777777777888888888888888899999999999999999999


Q ss_pred             CchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          298 GSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERML  377 (544)
Q Consensus       298 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  377 (544)
                      |+++.+.+++..+.+.|+.++..+++.++.+|++.|++++|.++|+.|.++|..+|+.++.+|++.|+.++|+.+|++|.
T Consensus       403 g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~  482 (857)
T PLN03077        403 GDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQML  482 (857)
T ss_pred             chHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             HcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHH
Q 044352          378 EEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAG  457 (544)
Q Consensus       378 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  457 (544)
                      . ++.||..||..++.+|++.|.++.+.+++..+.+. |+.++..+++.++.+|+++|++++|.++|+.+  .+|..+|+
T Consensus       483 ~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~-g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n  558 (857)
T PLN03077        483 L-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRT-GIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWN  558 (857)
T ss_pred             h-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHh-CCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHH
Confidence            6 58999999999999999999999999999999887 99999999999999999999999999999998  78999999


Q ss_pred             HHHHHHhhcCChHHHHHHHHHHHHcC-CCCchhHHHHHHHHHhcCChHHHHHHHHHHH-hcCCCCCC
Q 044352          458 AFRNGCNIHGRRDLAVTMGEEFFEMG-LRKPDGFVMLSNICAADGEWHEAENLRKIMK-EKNVQKQP  522 (544)
Q Consensus       458 ~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~  522 (544)
                      .++.+|.+.|+.++|.++|+++.+.+ .+|..+|..++.+|.+.|++++|.++|+.|. +.|+.|+.
T Consensus       559 ~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~  625 (857)
T PLN03077        559 ILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNL  625 (857)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCch
Confidence            99999999999999999999999876 4578899999999999999999999999998 67877765

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.9e-65  Score=519.54  Aligned_cols=509  Identities=17%  Similarity=0.206  Sum_probs=475.5

Q ss_pred             CCcchHHHHHHHhhccchhhhhhHHhHHHhhc---ccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHH
Q 044352           11 LSVNYLDCLLGKCMKSKALRQGKQVHALLCTN---DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMA   87 (544)
Q Consensus        11 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~   87 (544)
                      ++...|..+...+.+.|++++|.++++.|.+.   +++.. .+..++..|.+.|..++|..+|+.+..||..+|+.++.+
T Consensus       368 ~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v-~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~a  446 (1060)
T PLN03218        368 RKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKI-YHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSV  446 (1060)
T ss_pred             CCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHH-HHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            34567888888999999999999999999988   67777 888999999999999999999999999999999999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHH
Q 044352           88 SAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSA  167 (544)
Q Consensus        88 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  167 (544)
                      |++.|+++.|.++|++|.+.|+.||..+|+.++.+|++.|+++.|.++|++|.+.|+.||..+|+.++.+|++.|++++|
T Consensus       447 ~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeA  526 (1060)
T PLN03218        447 CASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKA  526 (1060)
T ss_pred             HHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcc----CCChhhHHHHHHHHhccCChhHHHHHHHHHHH--cCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhh
Q 044352          168 RRVFHGMF----ERDVVSWTSMISGYCNVSKVDEAVVLFERMKL--EGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMT  241 (544)
Q Consensus       168 ~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  241 (544)
                      ..+|+.|.    .||..+|+.++.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|+.|.
T Consensus       527 l~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~  606 (1060)
T PLN03218        527 FGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIH  606 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            99999995    48999999999999999999999999999986  6789999999999999999999999999999999


Q ss_pred             hCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHH
Q 044352          242 AEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFT  321 (544)
Q Consensus       242 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  321 (544)
                      +.|+.|+..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++++.|.+.|+.|+..+
T Consensus       607 e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~t  686 (1060)
T PLN03218        607 EYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVS  686 (1060)
T ss_pred             HcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcC----CccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 044352          322 GSALIDMYSKCGSLKDARTLFEITR----IKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSH  397 (544)
Q Consensus       322 ~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  397 (544)
                      |+.++.+|++.|++++|.++|+.|.    .|+..+|+.+|.+|++.|++++|.++|++|...|+.||..||+.++.+|++
T Consensus       687 ynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k  766 (1060)
T PLN03218        687 YSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASER  766 (1060)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999985    589999999999999999999999999999999999999999999999999


Q ss_pred             CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHH----hc-------------------CCHHHHHHHHHhCC---CCC
Q 044352          398 GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLC----RS-------------------GRMVEAYDLLRQVP---MYV  451 (544)
Q Consensus       398 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~-------------------g~~~~A~~~~~~~~---~~~  451 (544)
                      .|+++.|.+++..|.+. |+.||..+|+.++..+.    ++                   +..+.|..+|++|.   ..|
T Consensus       767 ~G~le~A~~l~~~M~k~-Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~P  845 (1060)
T PLN03218        767 KDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLP  845 (1060)
T ss_pred             CCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCC
Confidence            99999999999999887 99999999999986533    21                   22467999999985   789


Q ss_pred             ChhHHHHHHHHHhhcCChHHHHHHHHHHHHc-CCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCC
Q 044352          452 TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEM-GLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPG  523 (544)
Q Consensus       452 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  523 (544)
                      +..+|..++.++...+..+.+..+++.+... .+++..+|..++..+.+  ..++|..++++|.+.|+.|+-.
T Consensus       846 d~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~--~~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        846 TMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGE--YDPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             CHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhcc--ChHHHHHHHHHHHHcCCCCCcc
Confidence            9999999998888889999998888876544 36678899999998732  2368999999999999987764

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.9e-60  Score=481.20  Aligned_cols=474  Identities=18%  Similarity=0.244  Sum_probs=440.0

Q ss_pred             ccchhhHHHHHHHHhhcCCChHHHHHHhccCCC-----CCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHH
Q 044352           43 DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPN-----PNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFS  117 (544)
Q Consensus        43 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~  117 (544)
                      .++.. .+..+...+++.|++++|+++|+.|..     ++...++.++.+|.+.|..++|..+++.|..    |+..+|+
T Consensus       367 ~~~~~-~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn  441 (1060)
T PLN03218        367 KRKSP-EYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFN  441 (1060)
T ss_pred             CCCch-HHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHH
Confidence            55666 788888999999999999999999984     4455667788889999999999999999974    9999999


Q ss_pred             HHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhcc----CCChhhHHHHHHHHhccC
Q 044352          118 IVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMF----ERDVVSWTSMISGYCNVS  193 (544)
Q Consensus       118 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~~  193 (544)
                      .++.+|++.|+++.|.++|+.|.+.|+.||..+|+.++.+|++.|++++|.++|++|.    .||..+|+.+|.+|++.|
T Consensus       442 ~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G  521 (1060)
T PLN03218        442 MLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAG  521 (1060)
T ss_pred             HHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCc
Confidence            9999999999999999999999999999999999999999999999999999999996    489999999999999999


Q ss_pred             ChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhh--CCCCCCHhHHHHHHHHHHcCCCHHHHHHH
Q 044352          194 KVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTA--EGFVPDLVTWNAMISGFAQSKRENEALKL  271 (544)
Q Consensus       194 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  271 (544)
                      ++++|.++|++|...|+.||..+|+.++.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++
T Consensus       522 ~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~el  601 (1060)
T PLN03218        522 QVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEV  601 (1060)
T ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999999999999999999999999999999999999999986  67899999999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC----
Q 044352          272 FKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI----  347 (544)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----  347 (544)
                      |+.|.+.|+.|+..+|+.++.+|++.|++++|..+|+.|.+.|+.||..+|+.++.+|++.|++++|.++|+.|.+    
T Consensus       602 f~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~  681 (1060)
T PLN03218        602 YQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIK  681 (1060)
T ss_pred             HHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999998874    


Q ss_pred             ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHH
Q 044352          348 KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACV  427 (544)
Q Consensus       348 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  427 (544)
                      ++..+|+.++.+|++.|++++|.++|++|...|+.||..+|+.++.+|++.|++++|.++|++|... |+.||..+|+.+
T Consensus       682 pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~-Gi~Pd~~Ty~sL  760 (1060)
T PLN03218        682 LGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL-GLCPNTITYSIL  760 (1060)
T ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHHH
Confidence            7899999999999999999999999999999999999999999999999999999999999999887 999999999999


Q ss_pred             HHHHHhcCCHHHHHHHHHhCC---CCCChhHHHHHHHHHhh-----------------------cCChHHHHHHHHHHHH
Q 044352          428 VDMLCRSGRMVEAYDLLRQVP---MYVTNSMAGAFRNGCNI-----------------------HGRRDLAVTMGEEFFE  481 (544)
Q Consensus       428 ~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~~l~~~~~~-----------------------~g~~~~A~~~~~~~~~  481 (544)
                      +.+|++.|++++|.++++.|.   ..|+..+++.++..|.+                       .+..+.|..+|++|.+
T Consensus       761 L~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~  840 (1060)
T PLN03218        761 LVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETIS  840 (1060)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHH
Confidence            999999999999999999984   78899999988765432                       1235789999999999


Q ss_pred             cC-CCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC
Q 044352          482 MG-LRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQP  522 (544)
Q Consensus       482 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  522 (544)
                      .+ +++..+|..++.++.+.+..+.+..+++.|...+..++.
T Consensus       841 ~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~  882 (1060)
T PLN03218        841 AGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQ  882 (1060)
T ss_pred             CCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcch
Confidence            87 557889999998888899999998888887665554443

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

Probab=100.00  E-value=9.8e-58  Score=463.79  Aligned_cols=428  Identities=24%  Similarity=0.377  Sum_probs=408.6

Q ss_pred             CCCcchHHHHHHHhhccchhhhhhHHhHHHhhc--ccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHH
Q 044352           10 NLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN--DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMA   87 (544)
Q Consensus        10 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~   87 (544)
                      +|+..+|..++.+|++.++++.|.+++..+.+.  .|+.. +++.++.+|++.|++++|.++|++++.||..+|+.++.+
T Consensus       120 ~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~-~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~  198 (697)
T PLN03081        120 TLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQY-MMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGG  198 (697)
T ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchH-HHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHH
Confidence            467889999999999999999999999999998  88999 999999999999999999999999999999999999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHH
Q 044352           88 SAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSA  167 (544)
Q Consensus        88 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  167 (544)
                      |++.|++++|+++|++|.+.|+.|+..+|..++.+|++.|..+.+.+++..+.+.|+.+|..+++.|+.+|++.|++++|
T Consensus       199 ~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A  278 (697)
T PLN03081        199 LVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDA  278 (697)
T ss_pred             HHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCC
Q 044352          168 RRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVP  247 (544)
Q Consensus       168 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  247 (544)
                      .++|++|.++|..+|++++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.|
T Consensus       279 ~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~  358 (697)
T PLN03081        279 RCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPL  358 (697)
T ss_pred             HHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044352          248 DLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALID  327 (544)
Q Consensus       248 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  327 (544)
                      |..+|+.|+.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|+.++|.++|++|.+.|+.||..+|+.++.
T Consensus       359 d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~  434 (697)
T PLN03081        359 DIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLS  434 (697)
T ss_pred             CeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence            99999999999999999999999999996    57899999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCHHHHHHHHHhcCC-----ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchH
Q 044352          328 MYSKCGSLKDARTLFEITRI-----KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVE  402 (544)
Q Consensus       328 ~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  402 (544)
                      +|.+.|.+++|.++|+.|.+     |+..+|+.++.+|++.|++++|.+++++|   ++.|+..+|+.++.+|...|+++
T Consensus       435 a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~  511 (697)
T PLN03081        435 ACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLE  511 (697)
T ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcH
Confidence            99999999999999998863     78889999999999999999999998876   47899999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCC-chhHHHHHHHHHHhcCCHHHHHHHHHhCC
Q 044352          403 KGLEIFRSMKERYGVKI-SKEHYACVVDMLCRSGRMVEAYDLLRQVP  448 (544)
Q Consensus       403 ~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  448 (544)
                      .|..+++++.+   ..| +..+|..++..|++.|++++|.++++.|.
T Consensus       512 ~a~~~~~~l~~---~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~  555 (697)
T PLN03081        512 LGRLAAEKLYG---MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLK  555 (697)
T ss_pred             HHHHHHHHHhC---CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            99999998864   445 46799999999999999999999999885

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

Probab=100.00  E-value=3.8e-36  Score=321.17  Aligned_cols=498  Identities=11%  Similarity=0.050  Sum_probs=360.8

Q ss_pred             CCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHH
Q 044352           10 NLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMV   85 (544)
Q Consensus        10 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~   85 (544)
                      |.++..+..+...+...|++++|.+.++++.+. |.+.. .+..++..+...|++++|+..|+.+.   +.+......++
T Consensus       360 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~  438 (899)
T TIGR02917       360 PDDPAALSLLGEAYLALGDFEKAAEYLAKATELDPENAA-ARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLI  438 (899)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHH
Confidence            334445555555555555555555555555555 33334 55555555555555555555555443   22233444455


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHH
Q 044352           86 MASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLC  165 (544)
Q Consensus        86 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  165 (544)
                      ..+.+.|++++|+.+++.+... .+++..++..+...+...|++++|...++++.+.. +.+...+..+...+...|+++
T Consensus       439 ~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~  516 (899)
T TIGR02917       439 LSYLRSGQFDKALAAAKKLEKK-QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPD  516 (899)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHH
Confidence            5555666666666666666543 23455566777777777777777777777776654 445556666777777777777


Q ss_pred             HHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044352          166 SARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTA  242 (544)
Q Consensus       166 ~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  242 (544)
                      +|...++++..   .+..++..+...+.+.|++++|...+.++...+ +.+...+..++..+...|++++|..+++.+.+
T Consensus       517 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  595 (899)
T TIGR02917       517 DAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAAD  595 (899)
T ss_pred             HHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777777643   345567777777777788888888887776554 44555666777778888888888888888776


Q ss_pred             CCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHH
Q 044352          243 EGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTG  322 (544)
Q Consensus       243 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  322 (544)
                      .. +.+...|..++.++...|++++|...|+++.+.. +.+...+..+..++...|++++|...++.+.+.. +.+..++
T Consensus       596 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  672 (899)
T TIGR02917       596 AA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQ  672 (899)
T ss_pred             cC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHH
Confidence            53 5567778888888888888888888888887653 3455667777778888888888888888887764 3456777


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 044352          323 SALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGG  399 (544)
Q Consensus       323 ~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  399 (544)
                      ..++..+...|++++|..+++.+..   .+...+..+...+...|++++|...++++...  .|+..++..+..++...|
T Consensus       673 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g  750 (899)
T TIGR02917       673 IGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASG  750 (899)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCC
Confidence            7888888888888888888877764   35567777888888888999999999888885  455577777888888889


Q ss_pred             chHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHH
Q 044352          400 LVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGE  477 (544)
Q Consensus       400 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  477 (544)
                      ++++|.+.++++.+  ..+.+...+..++..|...|++++|.+.|+++.  .++++..+..++..+...|+ .+|+.+++
T Consensus       751 ~~~~A~~~~~~~l~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~  827 (899)
T TIGR02917       751 NTAEAVKTLEAWLK--THPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAE  827 (899)
T ss_pred             CHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHH
Confidence            99999998888877  346677888888888999999999999998874  45567788888888888888 78999999


Q ss_pred             HHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 044352          478 EFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQ  519 (544)
Q Consensus       478 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  519 (544)
                      +++++.|+++..+..++.++...|++++|.++++++++.+..
T Consensus       828 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~  869 (899)
T TIGR02917       828 KALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE  869 (899)
T ss_pred             HHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            999999999999999999999999999999999999887643

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=100.00  E-value=1.5e-35  Score=316.64  Aligned_cols=498  Identities=11%  Similarity=0.002  Sum_probs=440.6

Q ss_pred             CCCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHH
Q 044352            7 PINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLN   82 (544)
Q Consensus         7 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~   82 (544)
                      ..+|.+...+..+...+...|++++|...++.+.+. +.... ....++..+.+.|++++|+..++.+.   +.++..|.
T Consensus       391 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  469 (899)
T TIGR02917       391 ELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGR-ADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHN  469 (899)
T ss_pred             hcCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchh-hHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcHHHH
Confidence            345667778899999999999999999999999998 55555 78888999999999999999999886   56778999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC
Q 044352           83 WMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCG  162 (544)
Q Consensus        83 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  162 (544)
                      .+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++.+.+.+ +.+..++..+...+.+.|
T Consensus       470 ~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  547 (899)
T TIGR02917       470 LLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTG  547 (899)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcC
Confidence            99999999999999999999998753 2345677788888999999999999999999875 667888999999999999


Q ss_pred             CHHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHH
Q 044352          163 LLCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSR  239 (544)
Q Consensus       163 ~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  239 (544)
                      +.++|...++++..   .+...+..++..+...|++++|..+++++.... +.+...|..+...+...|++++|...|+.
T Consensus       548 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  626 (899)
T TIGR02917       548 NEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKK  626 (899)
T ss_pred             CHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999999854   455678889999999999999999999998654 56778899999999999999999999999


Q ss_pred             hhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCH
Q 044352          240 MTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDV  319 (544)
Q Consensus       240 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  319 (544)
                      +.+.. +.+...+..+..++.+.|++++|...|+++.+.. +.+..++..+...+...|++++|..+++.+.+.. +.+.
T Consensus       627 ~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~  703 (899)
T TIGR02917       627 LLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAA  703 (899)
T ss_pred             HHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCh
Confidence            98764 5567788899999999999999999999998754 4567888999999999999999999999998886 4567


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhcCC--ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 044352          320 FTGSALIDMYSKCGSLKDARTLFEITRI--KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSH  397 (544)
Q Consensus       320 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  397 (544)
                      ..+..+...+...|++++|...|+.+..  |+..++..++.++...|++++|.+.++++.+. .+.+...+..+...|..
T Consensus       704 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~  782 (899)
T TIGR02917       704 LGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKT-HPNDAVLRTALAELYLA  782 (899)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHH
Confidence            7888899999999999999999998764  55577888899999999999999999999986 36678899999999999


Q ss_pred             CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHH
Q 044352          398 GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTM  475 (544)
Q Consensus       398 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~  475 (544)
                      .|++++|.+.|+++.+.  .+.+...+..++..+...|+ .+|+.+++++.  .+.++..+..++.++...|++++|..+
T Consensus       783 ~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~  859 (899)
T TIGR02917       783 QKDYDKAIKHYRTVVKK--APDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPL  859 (899)
T ss_pred             CcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999874  46778899999999999999 88999999874  344566788888899999999999999


Q ss_pred             HHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          476 GEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       476 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      ++++++.+|.++.++..++.++.+.|++++|++++++|++
T Consensus       860 ~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  899 (899)
T TIGR02917       860 LRKAVNIAPEAAAIRYHLALALLATGRKAEARKELDKLLN  899 (899)
T ss_pred             HHHHHhhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHhC
Confidence            9999999999999999999999999999999999999863

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.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=100.00  E-value=3.7e-27  Score=251.88  Aligned_cols=489  Identities=12%  Similarity=0.021  Sum_probs=226.1

Q ss_pred             HHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhH----------
Q 044352           16 LDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFML----------   81 (544)
Q Consensus        16 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~----------   81 (544)
                      +..-++.+...++.+.|.+.+++++.. |.++. ++..++..+.+.|+.++|.+.++++.   |.++..+          
T Consensus        31 Ll~q~~~~~~~~~~d~a~~~l~kl~~~~p~~p~-~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~  109 (1157)
T PRK11447         31 LLEQVRLGEATHREDLVRQSLYRLELIDPNNPD-VIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLLST  109 (1157)
T ss_pred             HHHHHHHHHhhCChHHHHHHHHHHHccCCCCHH-HHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHhcC
Confidence            444445555555555555555555555 44444 55555555555555555555555544   2222211          


Q ss_pred             ------HHHHHHHHhcCCHHHHHHHHHHHHhcccccCHH-HHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHH
Q 044352           82 ------NWMVMASAFTGNFQEAIGYFSLMREFIYRCNKF-TFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNAL  154 (544)
Q Consensus        82 ------~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  154 (544)
                            ..+...+...|++++|+..|+++.+.+ +|+.. ............|+.++|...++++.+.. |.+...+..+
T Consensus       110 ~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~L  187 (1157)
T PRK11447        110 PEGRQALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTL  187 (1157)
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence                  112223445555555555555555432 12211 11111111123355555555555555543 3344445555


Q ss_pred             HHHHHhCCCHHHHHHHHhhccCCCh-----------------------hhH-----------------------------
Q 044352          155 IDMYSKCGLLCSARRVFHGMFERDV-----------------------VSW-----------------------------  182 (544)
Q Consensus       155 ~~~~~~~~~~~~A~~~~~~~~~~~~-----------------------~~~-----------------------------  182 (544)
                      ...+...|+.++|...++++.....                       ..+                             
T Consensus       188 A~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~d  267 (1157)
T PRK11447        188 ALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLAD  267 (1157)
T ss_pred             HHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccC
Confidence            5555555555555555554421000                       000                             


Q ss_pred             -----HHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCC-CHhHH----
Q 044352          183 -----TSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVP-DLVTW----  252 (544)
Q Consensus       183 -----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~----  252 (544)
                           ......+...|++++|...|++..+.. +.+...+..+...+.+.|++++|+..|++..+..-.. ....|    
T Consensus       268 p~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll  346 (1157)
T PRK11447        268 PAFRARAQGLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLL  346 (1157)
T ss_pred             cchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHH
Confidence                 011233445566666666666665542 2345556666666666666666666666665442110 11111    


Q ss_pred             --------HHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHH
Q 044352          253 --------NAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSA  324 (544)
Q Consensus       253 --------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  324 (544)
                              ......+.+.|++++|...|++++... +.+...+..+..++...|++++|.+.|+++.+... .+...+..
T Consensus       347 ~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p-~~~~a~~~  424 (1157)
T PRK11447        347 KVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDP-GNTNAVRG  424 (1157)
T ss_pred             HhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHH
Confidence                    111234556666666666666666542 23344555556666666666666666666665532 22333333


Q ss_pred             HHHH------------------------------------------HHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHH
Q 044352          325 LIDM------------------------------------------YSKCGSLKDARTLFEITRI---KNVASWNAMIGC  359 (544)
Q Consensus       325 l~~~------------------------------------------~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~  359 (544)
                      +...                                          +...|++++|.+.|++...   .++..+..+...
T Consensus       425 L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~  504 (1157)
T PRK11447        425 LANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQD  504 (1157)
T ss_pred             HHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            3333                                          3344555555555544432   123344445555


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCch---------hHHHHHHHH
Q 044352          360 YGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISK---------EHYACVVDM  430 (544)
Q Consensus       360 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---------~~~~~l~~~  430 (544)
                      |...|++++|...++++.+.. +.+...+..+...+...++.++|...++.+... ...++.         ..+..++..
T Consensus       505 ~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~-~~~~~~~~l~~~l~~~~~l~~a~~  582 (1157)
T PRK11447        505 LRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRA-QWNSNIQELAQRLQSDQVLETANR  582 (1157)
T ss_pred             HHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCch-hcChhHHHHHHHHhhhHHHHHHHH
Confidence            555555555555555554421 223333333333344455555555555443110 000000         000111222


Q ss_pred             HHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHH
Q 044352          431 LCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLR  510 (544)
Q Consensus       431 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  510 (544)
                      +...|+.++|.++++.-  +.++..+..++..+...|++++|+..|+++++.+|+++.++..++.+|...|++++|++.+
T Consensus       583 l~~~G~~~eA~~~l~~~--p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l  660 (1157)
T PRK11447        583 LRDSGKEAEAEALLRQQ--PPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQL  660 (1157)
T ss_pred             HHHCCCHHHHHHHHHhC--CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            33333444444433321  1223333444444555555555555555555555555555555555555555555555555


Q ss_pred             HHHH
Q 044352          511 KIMK  514 (544)
Q Consensus       511 ~~~~  514 (544)
                      +++.
T Consensus       661 ~~ll  664 (1157)
T PRK11447        661 AKLP  664 (1157)
T ss_pred             HHHh
Confidence            5444

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=100.00  E-value=5.9e-27  Score=250.33  Aligned_cols=487  Identities=11%  Similarity=-0.012  Sum_probs=347.4

Q ss_pred             HHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcC
Q 044352           17 DCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTG   92 (544)
Q Consensus        17 ~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~   92 (544)
                      ...+..+...|++++|.+.|+.+++. |++.......+.......|+.++|+..|+++.   |.++..+..+...+...|
T Consensus       116 l~~A~ll~~~g~~~eA~~~~~~~l~~~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~g  195 (1157)
T PRK11447        116 LQQARLLATTGRTEEALASYDKLFNGAPPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSSG  195 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHccCCCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccC
Confidence            44556778889999999999999888 55544122222222334588999999998887   556667888888888889


Q ss_pred             CHHHHHHHHHHHHhccc------------------c--------------cCHHHH---------------------HHH
Q 044352           93 NFQEAIGYFSLMREFIY------------------R--------------CNKFTF---------------------SIV  119 (544)
Q Consensus        93 ~~~~A~~~~~~~~~~~~------------------~--------------p~~~~~---------------------~~l  119 (544)
                      ++++|+..++++.+...                  .              |+...+                     ...
T Consensus       196 ~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~  275 (1157)
T PRK11447        196 RRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQ  275 (1157)
T ss_pred             CHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHH
Confidence            99999998888754210                  0              110000                     011


Q ss_pred             HHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccC--CCh---hhHH-----------
Q 044352          120 LKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFE--RDV---VSWT-----------  183 (544)
Q Consensus       120 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~---~~~~-----------  183 (544)
                      ...+...|++++|...+++.++.. |.+..++..+..++.+.|++++|+..|++..+  |+.   ..|.           
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            234556788888888888888775 55778888888888888999999888888754  221   1121           


Q ss_pred             -HHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHH------
Q 044352          184 -SMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMI------  256 (544)
Q Consensus       184 -~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~------  256 (544)
                       .....+.+.|++++|...|++..... +.+...+..+...+...|++++|++.|+++.+.. +.+...+..+.      
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~  432 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQ  432 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence             12345667888888888888888764 3445666777888888888888888888887653 22233333222      


Q ss_pred             ------------------------------------HHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCch
Q 044352          257 ------------------------------------SGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSI  300 (544)
Q Consensus       257 ------------------------------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  300 (544)
                                                          ..+...|++++|++.|++.++.. +-+...+..+...+...|++
T Consensus       433 ~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~  511 (1157)
T PRK11447        433 SPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQR  511 (1157)
T ss_pred             CHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence                                                33445677777777777776543 23455566667777777777


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc----cH---------HHHHHHHHHHHhcCChH
Q 044352          301 QIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK----NV---------ASWNAMIGCYGKHGMVD  367 (544)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~---------~~~~~l~~~~~~~g~~~  367 (544)
                      ++|...++.+.+.. +.+...+..+...+...++.++|...++.+...    +.         ..+..+...+...|+.+
T Consensus       512 ~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~  590 (1157)
T PRK11447        512 SQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEA  590 (1157)
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHH
Confidence            77777777776654 224444444555566677777777777766531    11         11233456677788888


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhC
Q 044352          368 SSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQV  447 (544)
Q Consensus       368 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  447 (544)
                      +|..+++.     .+++...+..+...+.+.|++++|+..|+++.+.  .+.+...+..++..|...|++++|.+.++.+
T Consensus       591 eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~l  663 (1157)
T PRK11447        591 EAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKL  663 (1157)
T ss_pred             HHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            88888772     3556677888889999999999999999999874  4566888999999999999999999999987


Q ss_pred             C-CC-CChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCc------hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          448 P-MY-VTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKP------DGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       448 ~-~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      . .. .+...+..++.++...|++++|.+.++++++..|+++      ..+..++.++...|++++|+..|++++.
T Consensus       664 l~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        664 PATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             hccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5 23 3456777788889999999999999999999876554      3566779999999999999999999974

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.97  E-value=1.4e-25  Score=228.88  Aligned_cols=494  Identities=9%  Similarity=-0.055  Sum_probs=327.9

Q ss_pred             cCCCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhH
Q 044352            6 FPINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFML   81 (544)
Q Consensus         6 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~   81 (544)
                      +..+|.++.++..++..+...|+.++|...++++++. |.|.. .+..+...    +++++|...++++.   |.+...+
T Consensus        71 l~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~-~~~~La~i----~~~~kA~~~ye~l~~~~P~n~~~~  145 (987)
T PRK09782         71 HQQVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDAR-LERSLAAI----PVEVKSVTTVEELLAQQKACDAVP  145 (987)
T ss_pred             HHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHH-HHHHHHHh----ccChhHHHHHHHHHHhCCCChhHH
Confidence            3445556666666666666666666666666666666 33333 33333222    66666666666665   3334444


Q ss_pred             HHHHHH--------HHhcCCHHHHHHHHHHHHhcccccCHHHHHHH-HHHhhCCCChHHHHHHHHHHHHcCCCCChhHHH
Q 044352           82 NWMVMA--------SAFTGNFQEAIGYFSLMREFIYRCNKFTFSIV-LKACVGLLDIKKGKQVHAVATQMGFENDVSVGN  152 (544)
Q Consensus        82 ~~l~~~--------~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  152 (544)
                      ..+...        |.+.   ++|...++ .......|+....... .+.|.+.++++.|+.++..+.+.+ +.+.....
T Consensus       146 ~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~-pl~~~~~~  220 (987)
T PRK09782        146 TLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQN-TLSAAERR  220 (987)
T ss_pred             HHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcC-CCCHHHHH
Confidence            444443        3333   33443343 2222233344444444 778888899999999999998886 55566667


Q ss_pred             HHHHHHHh-CCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCC-CCHhhH-------------
Q 044352          153 ALIDMYSK-CGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLE-PNQFTY-------------  217 (544)
Q Consensus       153 ~l~~~~~~-~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~-------------  217 (544)
                      .|..+|.. .++ +.+..+++...+.++..+..+...|.+.|+.++|..+++++...-.. |...++             
T Consensus       221 ~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~  299 (987)
T PRK09782        221 QWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQ  299 (987)
T ss_pred             HHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhh
Confidence            77777777 366 88888877655677888889999999999999999988887543211 333332             


Q ss_pred             -----------------HHHHHH---------------------------------------------------------
Q 044352          218 -----------------NAIIAS---------------------------------------------------------  223 (544)
Q Consensus       218 -----------------~~l~~~---------------------------------------------------------  223 (544)
                                       -.++..                                                         
T Consensus       300 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l  379 (987)
T PRK09782        300 ALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRL  379 (987)
T ss_pred             hccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHH
Confidence                             000112                                                         


Q ss_pred             ------HHhcCChHHHHHHHHHhhhC--CCCCCHhHHHHHHHHHHcCCC---HHHHHHH---------------------
Q 044352          224 ------YARRGDSNAAFAFFSRMTAE--GFVPDLVTWNAMISGFAQSKR---ENEALKL---------------------  271 (544)
Q Consensus       224 ------~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~---~~~a~~~---------------------  271 (544)
                            ....|+.++|.++|+.....  +..++......++..|.+.+.   ..++..+                     
T Consensus       380 ~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  459 (987)
T PRK09782        380 DQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIAD  459 (987)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhh
Confidence                  22344455555555554431  012223333345555555544   2222222                     


Q ss_pred             -HHHHHHc-CC-CC--CHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 044352          272 -FKGMLVS-GI-KP--NNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITR  346 (544)
Q Consensus       272 -~~~~~~~-~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  346 (544)
                       +...... +. ++  +...+..+..++.. ++.++|...+.......  |+......+...+...|++++|...|+++.
T Consensus       460 ~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~  536 (987)
T PRK09782        460 NCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKIS  536 (987)
T ss_pred             hHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence             1111110 11 22  34455555555554 67778888777776654  444444445555678999999999998766


Q ss_pred             C--ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHH
Q 044352          347 I--KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHY  424 (544)
Q Consensus       347 ~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  424 (544)
                      .  ++...+..+..++...|++++|...+++.++.. +++...+..+...+...|++++|...+++..+.   .|+...+
T Consensus       537 ~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l---~P~~~a~  612 (987)
T PRK09782        537 LHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI---APSANAY  612 (987)
T ss_pred             ccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh---CCCHHHH
Confidence            4  344556677788889999999999999998863 334444444455556779999999999999864   5678889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCC
Q 044352          425 ACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGE  502 (544)
Q Consensus       425 ~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  502 (544)
                      ..++.++.+.|++++|...++++.  .+.+...+..++.++...|++++|+..++++++++|+++.++..++.++...|+
T Consensus       613 ~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd  692 (987)
T PRK09782        613 VARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDD  692 (987)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCC
Confidence            999999999999999999999874  445567888888899999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHhcC
Q 044352          503 WHEAENLRKIMKEKN  517 (544)
Q Consensus       503 ~~~A~~~~~~~~~~~  517 (544)
                      +++|+..++++++..
T Consensus       693 ~~eA~~~l~~Al~l~  707 (987)
T PRK09782        693 MAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHHHHHHhcC
Confidence            999999999998654

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

Probab=99.96  E-value=2.4e-25  Score=202.28  Aligned_cols=464  Identities=11%  Similarity=0.064  Sum_probs=365.7

Q ss_pred             hhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHH
Q 044352           28 ALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLM  104 (544)
Q Consensus        28 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  104 (544)
                      ....+-.+.++..+.+.... ....++.-.-+.|++.+|++.-.-+-   +.+....-.+-..+.+..+++....--...
T Consensus        30 ~s~~s~~v~qq~~~t~~~~~-~~l~lah~~yq~gd~~~a~~h~nmv~~~d~t~~~~llll~ai~~q~~r~d~s~a~~~~a  108 (966)
T KOG4626|consen   30 SSSGSSSVLQQFNKTHEGSD-DRLELAHRLYQGGDYKQAEKHCNMVGQEDPTNTERLLLLSAIFFQGSRLDKSSAGSLLA  108 (966)
T ss_pred             ccccchHHHHHhccCCccch-hHHHHHHHHHhccCHHHHHHHHhHhhccCCCcccceeeehhhhhcccchhhhhhhhhhh
Confidence            44445556666666533444 45667777778899999988765554   222333333445566666666655544444


Q ss_pred             HhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCCh--hhH
Q 044352          105 REFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDV--VSW  182 (544)
Q Consensus       105 ~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~  182 (544)
                      .+. .+.-..+|..+...+-..|++++|+.+++.+++.. +.....|..+..++...|+.+.|.+.|....+-|+  ...
T Consensus       109 ~r~-~~q~ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca  186 (966)
T KOG4626|consen  109 IRK-NPQGAEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCA  186 (966)
T ss_pred             hhc-cchHHHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhh
Confidence            442 23356788889999999999999999999998875 55678888899999999999999999988876444  332


Q ss_pred             H-HHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCC-HhHHHHHHHHHH
Q 044352          183 T-SMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPD-LVTWNAMISGFA  260 (544)
Q Consensus       183 ~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~  260 (544)
                      . .+...+-..|+..+|...|.+..+.. +-=...|+.|...+-..|+...|+..|++..+.  .|+ ...|-.|...|.
T Consensus       187 ~s~lgnLlka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~k  263 (966)
T KOG4626|consen  187 RSDLGNLLKAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYK  263 (966)
T ss_pred             hcchhHHHHhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHH
Confidence            2 33344445789999999998887652 223557888888999999999999999999876  444 567888999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 044352          261 QSKRENEALKLFKGMLVSGIKPN-NVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDAR  339 (544)
Q Consensus       261 ~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  339 (544)
                      ..+.+++|+..|.+....  .|+ ...+..+...|..+|+.+.|+..+++..+.. +.-+.+|+.+..++-..|++.+|.
T Consensus       264 e~~~~d~Avs~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~  340 (966)
T KOG4626|consen  264 EARIFDRAVSCYLRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAV  340 (966)
T ss_pred             HHhcchHHHHHHHHHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHH
Confidence            999999999999998854  555 4567777788899999999999999999875 335779999999999999999999


Q ss_pred             HHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCchHHHHHHHHHHHHHh
Q 044352          340 TLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRAN-EVTLISVLSACSHGGLVEKGLEIFRSMKERY  415 (544)
Q Consensus       340 ~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  415 (544)
                      +.+.+...   ....+.+.|...|...|.+++|..+|....+  +.|. ....+.+...|-+.|++++|+..|++..+  
T Consensus       341 ~cYnkaL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--  416 (966)
T KOG4626|consen  341 DCYNKALRLCPNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--  416 (966)
T ss_pred             HHHHHHHHhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--
Confidence            99998774   3456889999999999999999999999988  4554 45788999999999999999999999985  


Q ss_pred             CCCCc-hhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC-hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHH
Q 044352          416 GVKIS-KEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVT-NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVM  492 (544)
Q Consensus       416 ~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  492 (544)
                       +.|+ ...|+.++..|-..|+.+.|.+.+.++. ..|. ..++..++..|...|+..+|+..|++++++.|+.|.++..
T Consensus       417 -I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cN  495 (966)
T KOG4626|consen  417 -IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCN  495 (966)
T ss_pred             -cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhH
Confidence             4555 6789999999999999999999999875 4444 6689999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHH
Q 044352          493 LSNICAADGEWHE  505 (544)
Q Consensus       493 l~~~~~~~g~~~~  505 (544)
                      ++.++.--.+|.+
T Consensus       496 llh~lq~vcdw~D  508 (966)
T KOG4626|consen  496 LLHCLQIVCDWTD  508 (966)
T ss_pred             HHHHHHHHhcccc
Confidence            9877655544443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.95  E-value=3.8e-22  Score=203.94  Aligned_cols=490  Identities=8%  Similarity=-0.041  Sum_probs=355.9

Q ss_pred             cCCCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHH--------hhcCCChHHHHHHhccCCCC
Q 044352            6 FPINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGV--------YAGCGDVNSARLVFDKIPNP   76 (544)
Q Consensus         6 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~--------~~~~g~~~~A~~~~~~~~~~   76 (544)
                      +..+|.+...+..+.    ..+++.+|..+++++++. |.+.. ++..++..        |.+.++...+++  .+..++
T Consensus       105 v~ldP~n~~~~~~La----~i~~~~kA~~~ye~l~~~~P~n~~-~~~~la~~~~~~~~l~y~q~eqAl~AL~--lr~~~~  177 (987)
T PRK09782        105 LKRHPGDARLERSLA----AIPVEVKSVTTVEELLAQQKACDA-VPTLRCRSEVGQNALRLAQLPVARAQLN--DATFAA  177 (987)
T ss_pred             HhcCcccHHHHHHHH----HhccChhHHHHHHHHHHhCCCChh-HHHHHHHHhhccchhhhhhHHHHHHHHH--HhhhCC
Confidence            344554444444442    229999999999999999 66677 88888887        777777777777  333333


Q ss_pred             --CchhHHHH-HHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhC-CCChHHHHHHHHHHHHcCCCCChhHHH
Q 044352           77 --NVFMLNWM-VMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVG-LLDIKKGKQVHAVATQMGFENDVSVGN  152 (544)
Q Consensus        77 --~~~~~~~l-~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~  152 (544)
                        ++...... ...|.+.|++++|+.++.++.+.+.. +......+..+|.. .++ +.+..++..    .+..+.....
T Consensus       178 ~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~  251 (987)
T PRK09782        178 SPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRI  251 (987)
T ss_pred             CCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHH
Confidence              34444544 88999999999999999999987533 34445566667766 366 777776442    2346778888


Q ss_pred             HHHHHHHhCCCHHHHHHHHhhccC-----CChhh------------------------------HHHHHHH---------
Q 044352          153 ALIDMYSKCGLLCSARRVFHGMFE-----RDVVS------------------------------WTSMISG---------  188 (544)
Q Consensus       153 ~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~------------------------------~~~l~~~---------  188 (544)
                      .++..|.+.|+.++|...++++..     ++..+                              ...++..         
T Consensus       252 ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (987)
T PRK09782        252 TYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDA  331 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHH
Confidence            899999999999999988887722     00000                              0000111         


Q ss_pred             ------------------------------------------------------HhccCChhHHHHHHHHHHHc--CCCC
Q 044352          189 ------------------------------------------------------YCNVSKVDEAVVLFERMKLE--GLEP  212 (544)
Q Consensus       189 ------------------------------------------------------~~~~~~~~~a~~~~~~~~~~--~~~~  212 (544)
                                                                            ..+.|+.++|..+|+.....  ...+
T Consensus       332 ~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  411 (987)
T PRK09782        332 AQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARL  411 (987)
T ss_pred             HHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCccccc
Confidence                                                                  22345555555555555431  1122


Q ss_pred             CHhhHHHHHHHHHhcCC---hHHHHHH-------------------------HHHhhhCCCCC--CHhHHHHHHHHHHcC
Q 044352          213 NQFTYNAIIASYARRGD---SNAAFAF-------------------------FSRMTAEGFVP--DLVTWNAMISGFAQS  262 (544)
Q Consensus       213 ~~~~~~~l~~~~~~~~~---~~~a~~~-------------------------~~~~~~~~~~~--~~~~~~~l~~~~~~~  262 (544)
                      +.....-++..|.+.+.   ..++..+                         +...... -++  +...|..+..++.. 
T Consensus       412 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~-~p~~~~~~a~~~LG~~l~~-  489 (987)
T PRK09782        412 SQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGD-MSPSYDAAAWNRLAKCYRD-  489 (987)
T ss_pred             CHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhccc-CCCCCCHHHHHHHHHHHHh-
Confidence            23333466677776655   3333222                         1111111 133  66778888888877 


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 044352          263 KRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLF  342 (544)
Q Consensus       263 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  342 (544)
                      +++++|+..+.+....  .|+......+...+...|++++|...++.+...  +|+...+..+..++.+.|+.++|...+
T Consensus       490 ~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l  565 (987)
T PRK09782        490 TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWL  565 (987)
T ss_pred             CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHH
Confidence            8999999988888765  466555545556667899999999999997665  334445667788889999999999999


Q ss_pred             HhcCCccHH---HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCC
Q 044352          343 EITRIKNVA---SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKI  419 (544)
Q Consensus       343 ~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  419 (544)
                      +.....++.   .+..+.......|++++|...+++.++.  .|+...+..+..++.+.|++++|+..+++....  .|.
T Consensus       566 ~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd  641 (987)
T PRK09782        566 QQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPN  641 (987)
T ss_pred             HHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCC
Confidence            887754333   3333333444569999999999999985  677889999999999999999999999999873  456


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC  497 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  497 (544)
                      +...+..++.++...|++++|+..++++.  .+.++..+..++.++...|++++|+..++++++++|++..+....+++.
T Consensus       642 ~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~  721 (987)
T PRK09782        642 NSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQN  721 (987)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHH
Confidence            67888999999999999999999999874  4556788999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHhcCC
Q 044352          498 AADGEWHEAENLRKIMKEKNV  518 (544)
Q Consensus       498 ~~~g~~~~A~~~~~~~~~~~~  518 (544)
                      .+..+++.|.+.+++....++
T Consensus       722 ~~~~~~~~a~~~~~r~~~~~~  742 (987)
T PRK09782        722 QQRFNFRRLHEEVGRRWTFSF  742 (987)
T ss_pred             HHHHHHHHHHHHHHHHhhcCc
Confidence            999999999999988776554

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

Probab=99.94  E-value=1.4e-23  Score=190.92  Aligned_cols=425  Identities=11%  Similarity=0.090  Sum_probs=349.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 044352           81 LNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSK  160 (544)
Q Consensus        81 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  160 (544)
                      ...+..-..+.|++++|++.-...-+.+. .+......+-..+.+..+.+...+--....+.. +.-..+|..+.+.+-.
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d~-t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~-~q~ae~ysn~aN~~ke  128 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQEDP-TNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccCC-Ccccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHH
Confidence            44566667789999999998877766432 233334444455666666666555544444443 5567889999999999


Q ss_pred             CCCHHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhH-HHHHHHHHhcCChHHHHHH
Q 044352          161 CGLLCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTY-NAIIASYARRGDSNAAFAF  236 (544)
Q Consensus       161 ~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~  236 (544)
                      .|++++|+..++.+.+   ..+..|..+..++...|+.+.|...|.+.++.  .|+.... +.+...+-..|++.+|...
T Consensus       129 rg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~c  206 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKAC  206 (966)
T ss_pred             hchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHH
Confidence            9999999999999866   34678999999999999999999999998865  5654433 3445555668999999999


Q ss_pred             HHHhhhCCCCCC-HhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhhccCchHHHHHHHHHHHHcC
Q 044352          237 FSRMTAEGFVPD-LVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPN-NVTVTGVLQAGGLTGSIQIGREIHALVCRMG  314 (544)
Q Consensus       237 ~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  314 (544)
                      |.+....  .|. ...|+.|...+..+|+...|+..|++..+.  .|+ ...|..+...|...+.++.|...+.+.....
T Consensus       207 YlkAi~~--qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr  282 (966)
T KOG4626|consen  207 YLKAIET--QPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR  282 (966)
T ss_pred             HHHHHhh--CCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC
Confidence            9887765  443 467899999999999999999999999854  454 4578899999999999999999999888764


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--cc-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 044352          315 LHIDVFTGSALIDMYSKCGSLKDARTLFEITRI--KN-VASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISV  391 (544)
Q Consensus       315 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  391 (544)
                       +....++-.+...|...|.++.|+..+++...  |+ +..|+.|..++...|++.+|...|.+.+.. .+.-....+.+
T Consensus       283 -pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l-~p~hadam~NL  360 (966)
T KOG4626|consen  283 -PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL-CPNHADAMNNL  360 (966)
T ss_pred             -CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh-CCccHHHHHHH
Confidence             33566777788889999999999999998875  43 458999999999999999999999999985 23346688999


Q ss_pred             HHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC-hhHHHHHHHHHhhcCCh
Q 044352          392 LSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVT-NSMAGAFRNGCNIHGRR  469 (544)
Q Consensus       392 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~g~~  469 (544)
                      ...+...|.++.|..+|....+  -.+--....+.|...|-.+|++++|+..|+++. +.|. ..++..++..|-..|+.
T Consensus       361 gni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  361 GNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhH
Confidence            9999999999999999999876  234446778999999999999999999999874 5665 56899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          470 DLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       470 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +.|+..|.+++..+|.-.+++..|+.+|-..|+..+|++-|+.+++..
T Consensus       439 ~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklk  486 (966)
T KOG4626|consen  439 SAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLK  486 (966)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccC
Confidence            999999999999999999999999999999999999999999998754

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

Probab=99.94  E-value=2.3e-22  Score=202.31  Aligned_cols=422  Identities=12%  Similarity=-0.004  Sum_probs=300.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 044352           81 LNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSK  160 (544)
Q Consensus        81 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  160 (544)
                      +......+.+.|++++|+..|++.+.  +.|+...|..+..++...|++++|...++..++.. +.+...+..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            45667788889999999999999987  56788888888899999999999999999999875 5567788889999999


Q ss_pred             CCCHHHHHHHHhhccCCC---hhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHH
Q 044352          161 CGLLCSARRVFHGMFERD---VVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFF  237 (544)
Q Consensus       161 ~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  237 (544)
                      .|++++|...|..+...+   ......++..+..    ..+........+.. +++...+..+.. +...........-+
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~  280 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAGL  280 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhhh
Confidence            999999988776553311   1111111111111    12222233322221 222222222222 22111111111111


Q ss_pred             HHhhhCCCCCCH-hHHHHHHHH---HHcCCCHHHHHHHHHHHHHcC-CCC-CHHHHHHHHHHhhccCchHHHHHHHHHHH
Q 044352          238 SRMTAEGFVPDL-VTWNAMISG---FAQSKRENEALKLFKGMLVSG-IKP-NNVTVTGVLQAGGLTGSIQIGREIHALVC  311 (544)
Q Consensus       238 ~~~~~~~~~~~~-~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  311 (544)
                      ....+.  .+.. ..+..+...   ....+++++|.+.|+..++.+ ..| ....+..+...+...|++++|...++...
T Consensus       281 ~~~~~~--~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal  358 (615)
T TIGR00990       281 EDSNEL--DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSI  358 (615)
T ss_pred             hccccc--ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            111111  1111 111111111   123578999999999998764 223 34567777778888999999999999998


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH
Q 044352          312 RMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTL  388 (544)
Q Consensus       312 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  388 (544)
                      +.. +.....+..+..++...|++++|...|+....   .+...|..+...+...|++++|+..|++.++.. +.+...+
T Consensus       359 ~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~  436 (615)
T TIGR00990       359 ELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSH  436 (615)
T ss_pred             HcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHH
Confidence            875 33566788888899999999999999987653   457789999999999999999999999999862 4466778


Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC-hhH-------HHHH
Q 044352          389 ISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVT-NSM-------AGAF  459 (544)
Q Consensus       389 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~-------~~~l  459 (544)
                      ..+..++.+.|++++|+..+++..+  ..+.+...+..++.++...|++++|.+.|+++. ..|+ ...       +...
T Consensus       437 ~~la~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a  514 (615)
T TIGR00990       437 IQLGVTQYKEGSIASSMATFRRCKK--NFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKA  514 (615)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHH
Confidence            8888899999999999999999987  445667889999999999999999999998863 2222 111       1112


Q ss_pred             HHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          460 RNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       460 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ...+...|++++|..+++++++++|++..++..++.++...|++++|+.+|++..+..
T Consensus       515 ~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       515 LALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            2233446999999999999999999999999999999999999999999999987653

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

Probab=99.93  E-value=2.6e-21  Score=185.42  Aligned_cols=489  Identities=12%  Similarity=0.041  Sum_probs=267.3

Q ss_pred             HHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcC---CChHHHHHHhccCC---CCCchhHHHHHHHHHhcCC
Q 044352           21 GKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGC---GDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGN   93 (544)
Q Consensus        21 ~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~   93 (544)
                      ..+.+.|+.+.|+..|..+++. |.+.. ++-.|+..-...   ..+..+..++...-   +.|+...+.|...+.-.|+
T Consensus       207 ~Cf~kl~~~~~a~~a~~ralqLdp~~v~-alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~d  285 (1018)
T KOG2002|consen  207 HCFWKLGMSEKALLAFERALQLDPTCVS-ALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKD  285 (1018)
T ss_pred             hHHHhccchhhHHHHHHHHHhcChhhHH-HHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhccc
Confidence            3344555555555555555555 22222 333333222222   22233333333322   3444455555555555555


Q ss_pred             HHHHHHHHHHHHhcccc--cCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCCh--hHHHHHHHHHHhCCCHHHHHH
Q 044352           94 FQEAIGYFSLMREFIYR--CNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDV--SVGNALIDMYSKCGLLCSARR  169 (544)
Q Consensus        94 ~~~A~~~~~~~~~~~~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~A~~  169 (544)
                      ++.+.++...+......  .-...|-.+.+++-..|++++|...|-+..+..  ++.  ..+.-+.+.|.+.|+++.+..
T Consensus       286 y~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~--~d~~~l~~~GlgQm~i~~~dle~s~~  363 (1018)
T KOG2002|consen  286 YERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKAD--NDNFVLPLVGLGQMYIKRGDLEESKF  363 (1018)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccC--CCCccccccchhHHHHHhchHHHHHH
Confidence            55555555544432100  112234444555555555555555554444432  221  222334444555555555555


Q ss_pred             HHhhccC-----------------------------------------CChhhHHHHHHHHhccCChhHHHHHHHHH---
Q 044352          170 VFHGMFE-----------------------------------------RDVVSWTSMISGYCNVSKVDEAVVLFERM---  205 (544)
Q Consensus       170 ~~~~~~~-----------------------------------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---  205 (544)
                      .|+.+.+                                         .|...|-.+...+... ++..++..|...   
T Consensus       364 ~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql~e~~-d~~~sL~~~~~A~d~  442 (1018)
T KOG2002|consen  364 CFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQLLEQT-DPWASLDAYGNALDI  442 (1018)
T ss_pred             HHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHhc-ChHHHHHHHHHHHHH
Confidence            5554432                                         2333444444433332 222224444332   


Q ss_pred             -HHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhC---CCCCCH------hHHHHHHHHHHcCCCHHHHHHHHHHH
Q 044352          206 -KLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAE---GFVPDL------VTWNAMISGFAQSKRENEALKLFKGM  275 (544)
Q Consensus       206 -~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~  275 (544)
                       ...+-.+.+...|.+...+...|++..|...|......   ...++.      .+-..+..++-..++++.|.+.|+.+
T Consensus       443 L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~I  522 (1018)
T KOG2002|consen  443 LESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSI  522 (1018)
T ss_pred             HHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence             22333445555566666666666666666666655433   011111      12222445555556666666666666


Q ss_pred             HHcCCCCCH-HHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC-----cc
Q 044352          276 LVSGIKPNN-VTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI-----KN  349 (544)
Q Consensus       276 ~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~  349 (544)
                      ++.  .|.- ..|..++......++..+|...+..+.... ..++.++..+...+.+..++..|..-|+.+..     +|
T Consensus       523 lke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D  599 (1018)
T KOG2002|consen  523 LKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTD  599 (1018)
T ss_pred             HHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCc
Confidence            644  2332 223333323333455666666666666543 33555666666666666666666664443332     34


Q ss_pred             HHHHHHHHHHHHh------------cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCC
Q 044352          350 VASWNAMIGCYGK------------HGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGV  417 (544)
Q Consensus       350 ~~~~~~l~~~~~~------------~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  417 (544)
                      ..+.-+|...|..            .+..++|+++|.+.+.. -+.|...-+-+.-+++..|++..|..+|.++.+.  .
T Consensus       600 ~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~-dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa--~  676 (1018)
T KOG2002|consen  600 AYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRN-DPKNMYAANGIGIVLAEKGRFSEARDIFSQVREA--T  676 (1018)
T ss_pred             hhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhc-CcchhhhccchhhhhhhccCchHHHHHHHHHHHH--H
Confidence            4454555554432            24566778888887775 2446777777777788888888888888888775  2


Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHHhCC----CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHH
Q 044352          418 KISKEHYACVVDMLCRSGRMVEAYDLLRQVP----MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVML  493 (544)
Q Consensus       418 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  493 (544)
                      .....+|..++.+|..+|++-.|+++|+...    ...+......|+.++...|.+.+|.+.+..++...|.|+.....+
T Consensus       677 ~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~  756 (1018)
T KOG2002|consen  677 SDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNL  756 (1018)
T ss_pred             hhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHH
Confidence            3355678888888888888888888887753    344666777788888888888888888888888888888877777


Q ss_pred             HHHHHhc-------------------CChHHHHHHHHHHHhcCCC
Q 044352          494 SNICAAD-------------------GEWHEAENLRKIMKEKNVQ  519 (544)
Q Consensus       494 ~~~~~~~-------------------g~~~~A~~~~~~~~~~~~~  519 (544)
                      +.+..+.                   +..++|.++|..+...+-.
T Consensus       757 a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  757 ALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            7655443                   3566777777777765543

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

Probab=99.93  E-value=3.2e-21  Score=184.77  Aligned_cols=503  Identities=13%  Similarity=0.044  Sum_probs=332.8

Q ss_pred             CCCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc----ccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHH
Q 044352            7 PINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN----DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLN   82 (544)
Q Consensus         7 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~   82 (544)
                      ..+|++--.+..-+......|++..|+.+|..++..    ++++.   ..++.++.++|+.+.|+..|+++..-|+..-+
T Consensus       158 ~~sp~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~r---Igig~Cf~kl~~~~~a~~a~~ralqLdp~~v~  234 (1018)
T KOG2002|consen  158 KQSPDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVR---IGIGHCFWKLGMSEKALLAFERALQLDPTCVS  234 (1018)
T ss_pred             hhCCcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCcc---chhhhHHHhccchhhHHHHHHHHHhcChhhHH
Confidence            344554445555555556888999999999998888    44443   55677888999999999999998855544333


Q ss_pred             H---HHHHHHhc---CCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCC--CChhHHHHH
Q 044352           83 W---MVMASAFT---GNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFE--NDVSVGNAL  154 (544)
Q Consensus        83 ~---l~~~~~~~---~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l  154 (544)
                      .   |...-...   ..+..++.++...-..+ .-++...+.|...+.-.|+++.+..+...+......  .-...|-.+
T Consensus       235 alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~  313 (1018)
T KOG2002|consen  235 ALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQL  313 (1018)
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            3   33322233   34556777777665543 237778888999999999999999999998876421  223457789


Q ss_pred             HHHHHhCCCHHHHHHHHhhccCC--C--hhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcC--
Q 044352          155 IDMYSKCGLLCSARRVFHGMFER--D--VVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRG--  228 (544)
Q Consensus       155 ~~~~~~~~~~~~A~~~~~~~~~~--~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--  228 (544)
                      .++|...|++++|...|....+.  +  +..+.-+...+.+.|+.+.+...|+...... +-+..+...+...|...+  
T Consensus       314 gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~  392 (1018)
T KOG2002|consen  314 GRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKK  392 (1018)
T ss_pred             HHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhh
Confidence            99999999999999999888663  2  2345567788999999999999999887653 444556666666665543  


Q ss_pred             --ChHHHHHHHHHhhhC-------------------------------------CCCCCHhHHHHHHHHHHcCCCHHHHH
Q 044352          229 --DSNAAFAFFSRMTAE-------------------------------------GFVPDLVTWNAMISGFAQSKRENEAL  269 (544)
Q Consensus       229 --~~~~a~~~~~~~~~~-------------------------------------~~~~~~~~~~~l~~~~~~~~~~~~a~  269 (544)
                        ..+.|..++.+..+.                                     +-.+.+...|.+...+...|++.+|.
T Consensus       393 ~~~~d~a~~~l~K~~~~~~~d~~a~l~laql~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~  472 (1018)
T KOG2002|consen  393 QEKRDKASNVLGKVLEQTPVDSEAWLELAQLLEQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKAL  472 (1018)
T ss_pred             hHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHH
Confidence              334444444444333                                     22233334444444444555555555


Q ss_pred             HHHHHHHHc---CCCCCH------HHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 044352          270 KLFKGMLVS---GIKPNN------VTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDART  340 (544)
Q Consensus       270 ~~~~~~~~~---~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  340 (544)
                      ..|+.....   ...++.      .+-..+..+.-..++++.|.+.|..+.+.. +.-+..|..++.+....+...+|..
T Consensus       473 ~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~  551 (1018)
T KOG2002|consen  473 EHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASL  551 (1018)
T ss_pred             HHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHH
Confidence            555554432   011111      122233333444445555555555555443 1122333333323333455556666


Q ss_pred             HHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhc------------CCchHHH
Q 044352          341 LFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEG-MRANEVTLISVLSACSH------------GGLVEKG  404 (544)
Q Consensus       341 ~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~------------~~~~~~a  404 (544)
                      .+..+..   .++..+..+...+.....+..|.+-|+...+.- ..+|..+...|...|..            .+..++|
T Consensus       552 ~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KA  631 (1018)
T KOG2002|consen  552 LLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKA  631 (1018)
T ss_pred             HHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHH
Confidence            6655442   455666666667777777777777666655432 23455666666665542            2356788


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHc
Q 044352          405 LEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEM  482 (544)
Q Consensus       405 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  482 (544)
                      +++|.++.+  ..|-+...-+.++-+++..|++.+|.++|.++.  ......+|.+++.+|...|++..|++.|+..++.
T Consensus       632 lq~y~kvL~--~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkk  709 (1018)
T KOG2002|consen  632 LQLYGKVLR--NDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKK  709 (1018)
T ss_pred             HHHHHHHHh--cCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888876  456677777888889999999999999998875  2335678899999999999999999999999886


Q ss_pred             C--CCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          483 G--LRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       483 ~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .  .+++.++..|+.++.+.|.+.+|.+.+.......
T Consensus       710 f~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~  746 (1018)
T KOG2002|consen  710 FYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLA  746 (1018)
T ss_pred             hcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            5  4567889999999999999999999887776543

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

Probab=99.92  E-value=1.2e-20  Score=189.84  Aligned_cols=256  Identities=12%  Similarity=0.003  Sum_probs=170.1

Q ss_pred             cCChHHHHHHHHHhhhCC-C-CCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHH
Q 044352          227 RGDSNAAFAFFSRMTAEG-F-VPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGR  304 (544)
Q Consensus       227 ~~~~~~a~~~~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  304 (544)
                      .+++++|.+.|+...+.+ . +.....|..+...+...|++++|+..|++.++.. +.....+..+...+...|++++|.
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            355666666666666543 1 2233455556666666677777777766666442 222445555666666666777777


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 044352          305 EIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGM  381 (544)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  381 (544)
                      ..++.+.+.. +.+..++..+...+...|++++|...|++...   .+...+..+..++.+.|++++|+..+++.+.. .
T Consensus       386 ~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-~  463 (615)
T TIGR00990       386 EDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN-F  463 (615)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-C
Confidence            7766666654 33566677777777778888888887776653   34556777777888888888888888888775 2


Q ss_pred             CCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc-hh-------HHHHHHHHHHhcCCHHHHHHHHHhCC-CCC-
Q 044352          382 RANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS-KE-------HYACVVDMLCRSGRMVEAYDLLRQVP-MYV-  451 (544)
Q Consensus       382 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~-------~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-  451 (544)
                      +.+...+..+..++...|++++|+..|++..+.   .|+ ..       .+......+...|++++|.++++++. ..| 
T Consensus       464 P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l---~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~  540 (615)
T TIGR00990       464 PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL---EKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPE  540 (615)
T ss_pred             CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc---CCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC
Confidence            445677788888888888888888888887653   221 11       11112223344688888988888753 333 


Q ss_pred             ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch
Q 044352          452 TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD  488 (544)
Q Consensus       452 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  488 (544)
                      +...+..++..+...|++++|+.+|+++.++.+....
T Consensus       541 ~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~e  577 (615)
T TIGR00990       541 CDIAVATMAQLLLQQGDVDEALKLFERAAELARTEGE  577 (615)
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHHH
Confidence            3456778888888999999999999999888775443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.91  E-value=2.5e-20  Score=190.89  Aligned_cols=403  Identities=9%  Similarity=-0.008  Sum_probs=234.5

Q ss_pred             CCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHH
Q 044352           76 PNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALI  155 (544)
Q Consensus        76 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  155 (544)
                      .++....-.+.+....|+.++|++++.+..... +.+...+..+...+...|++++|..+++..++.. |.+...+..++
T Consensus        13 ~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la   90 (765)
T PRK10049         13 LSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLI   90 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            344445555666677777777777777776521 2344456667777777777777777777777663 44555666666


Q ss_pred             HHHHhCCCHHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHH
Q 044352          156 DMYSKCGLLCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNA  232 (544)
Q Consensus       156 ~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  232 (544)
                      .++...|++++|...++++.+   .+.. +..+..++...|++++|+..++++.+.. +.+...+..+...+...+..+.
T Consensus        91 ~~l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~  168 (765)
T PRK10049         91 LTLADAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAP  168 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHH
Confidence            677777777777777776643   2334 6666666667777777777777766553 2233444455556666666666


Q ss_pred             HHHHHHHhhhCCCCCCH------hHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCch---HHH
Q 044352          233 AFAFFSRMTAEGFVPDL------VTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSI---QIG  303 (544)
Q Consensus       233 a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a  303 (544)
                      |++.++....   .|+.      .....++......+.                              ...+++   +.|
T Consensus       169 Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~------------------------------~~~~r~~~ad~A  215 (765)
T PRK10049        169 ALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTR------------------------------SEKERYAIADRA  215 (765)
T ss_pred             HHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhccccc------------------------------ChhHHHHHHHHH
Confidence            7766665543   2221      001111111111000                              011111   334


Q ss_pred             HHHHHHHHHc-CCCCCHH-HH----HHHHHHHHhcCCHHHHHHHHHhcCCcc---HH-HHHHHHHHHHhcCChHHHHHHH
Q 044352          304 REIHALVCRM-GLHIDVF-TG----SALIDMYSKCGSLKDARTLFEITRIKN---VA-SWNAMIGCYGKHGMVDSSIELF  373 (544)
Q Consensus       304 ~~~~~~~~~~-~~~~~~~-~~----~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~-~~~~l~~~~~~~g~~~~A~~~~  373 (544)
                      ...++.+.+. ...|+.. .+    ...+.++...|++++|+..|+.+...+   +. ....+..+|...|++++|+..|
T Consensus       216 l~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l  295 (765)
T PRK10049        216 LAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSIL  295 (765)
T ss_pred             HHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHH
Confidence            4444444332 1111110 00    011223345566666666666665421   11 1122355666677777777777


Q ss_pred             HHHHHcCCCCC-----HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhC----------CCCc---hhHHHHHHHHHHhcC
Q 044352          374 ERMLEEGMRAN-----EVTLISVLSACSHGGLVEKGLEIFRSMKERYG----------VKIS---KEHYACVVDMLCRSG  435 (544)
Q Consensus       374 ~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------~~~~---~~~~~~l~~~~~~~g  435 (544)
                      +++....  |.     ......+..++...|++++|..+++.+.+...          ..|+   ...+..++..+...|
T Consensus       296 ~~~l~~~--p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g  373 (765)
T PRK10049        296 TELFYHP--ETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSN  373 (765)
T ss_pred             HHHhhcC--CCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcC
Confidence            7766532  21     23344555566677777777777777665310          0112   123445666777778


Q ss_pred             CHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHH
Q 044352          436 RMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIM  513 (544)
Q Consensus       436 ~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  513 (544)
                      ++++|+++++++.  .+.+...+..++..+...|++++|+..++++++++|+++..+..++..+.+.|++++|...++++
T Consensus       374 ~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~l  453 (765)
T PRK10049        374 DLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDV  453 (765)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            8888888887763  34456677777777888888888888888888888888888888888888888888888888887


Q ss_pred             HhcC
Q 044352          514 KEKN  517 (544)
Q Consensus       514 ~~~~  517 (544)
                      ++..
T Consensus       454 l~~~  457 (765)
T PRK10049        454 VARE  457 (765)
T ss_pred             HHhC
Confidence            7643

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.91  E-value=2.2e-21  Score=185.74  Aligned_cols=305  Identities=14%  Similarity=0.117  Sum_probs=198.0

Q ss_pred             HHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCC---HhHHHHHHHHHHcCCC
Q 044352          188 GYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPD---LVTWNAMISGFAQSKR  264 (544)
Q Consensus       188 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~  264 (544)
                      .+...|++++|...|.++.+.+ +.+..++..+...+...|++++|..+++.+...+..++   ...+..++..|.+.|+
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            3445566666666666666542 22334555555666666666666666666554321111   1344555555666666


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHh
Q 044352          265 ENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEI  344 (544)
Q Consensus       265 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  344 (544)
                      +++|..+|+++.+.. +++..++..++..+...|++++|...++.+.+.+..+....                       
T Consensus       123 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-----------------------  178 (389)
T PRK11788        123 LDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVE-----------------------  178 (389)
T ss_pred             HHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHH-----------------------
Confidence            666666666655431 22334444444444444555544444444443321110000                       


Q ss_pred             cCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHH
Q 044352          345 TRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHY  424 (544)
Q Consensus       345 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  424 (544)
                          ....+..++..+...|++++|...++++.+.. +.+...+..+...+...|++++|.++++++.+. +.......+
T Consensus       179 ----~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~  252 (389)
T PRK11788        179 ----IAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ-DPEYLSEVL  252 (389)
T ss_pred             ----HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-ChhhHHHHH
Confidence                01134556667778888888888888888752 334567777888888899999999999988764 222224567


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhCC-CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHh---c
Q 044352          425 ACVVDMLCRSGRMVEAYDLLRQVP-MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAA---D  500 (544)
Q Consensus       425 ~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~---~  500 (544)
                      ..++.+|...|++++|...++++. ..|+...+..++..+.+.|++++|..+++++++..|+++. +..+...+..   .
T Consensus       253 ~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~-~~~l~~~~~~~~~~  331 (389)
T PRK11788        253 PKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRG-FHRLLDYHLAEAEE  331 (389)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHH-HHHHHHHhhhccCC
Confidence            788889999999999999998864 4566666788888999999999999999999999997664 4444444443   5


Q ss_pred             CChHHHHHHHHHHHhcCCCCCCCc
Q 044352          501 GEWHEAENLRKIMKEKNVQKQPGF  524 (544)
Q Consensus       501 g~~~~A~~~~~~~~~~~~~~~~~~  524 (544)
                      |+.++|+..++++.+++++++|.+
T Consensus       332 g~~~~a~~~~~~~~~~~~~~~p~~  355 (389)
T PRK11788        332 GRAKESLLLLRDLVGEQLKRKPRY  355 (389)
T ss_pred             ccchhHHHHHHHHHHHHHhCCCCE
Confidence            699999999999999999988863

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.91  E-value=1.5e-19  Score=185.19  Aligned_cols=412  Identities=8%  Similarity=-0.004  Sum_probs=276.6

Q ss_pred             HHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCCC---CCchhHHHHHHHHHhcCCHHHHHHHHHHHHhccc
Q 044352           34 QVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPN---PNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIY  109 (544)
Q Consensus        34 ~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  109 (544)
                      ..++. .+. +.++. ...-.+.+....|+.++|++++....+   .+...+..+...+...|++++|+.+|++.++.. 
T Consensus         3 ~~~~~-~~~~~~~~~-~~~d~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-   79 (765)
T PRK10049          3 SWLRQ-ALKSALSNN-QIADWLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-   79 (765)
T ss_pred             hhhhh-hhccCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            34445 323 55555 667788888899999999999998763   444568999999999999999999999998842 


Q ss_pred             ccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccC---CChhhHHHHH
Q 044352          110 RCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFE---RDVVSWTSMI  186 (544)
Q Consensus       110 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~  186 (544)
                      +.+...+..+...+...|++++|...++++.+.. |.+.. +..+..++...|+.++|...++++.+   .+...+..+.
T Consensus        80 P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la  157 (765)
T PRK10049         80 PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYV  157 (765)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            2345667788888899999999999999999884 56666 88899999999999999999999965   3455667778


Q ss_pred             HHHhccCChhHHHHHHHHHHHcCCCCCHh------hHHHHHHHHHhc-----CCh---HHHHHHHHHhhhC-CCCCCHh-
Q 044352          187 SGYCNVSKVDEAVVLFERMKLEGLEPNQF------TYNAIIASYARR-----GDS---NAAFAFFSRMTAE-GFVPDLV-  250 (544)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~-----~~~---~~a~~~~~~~~~~-~~~~~~~-  250 (544)
                      .++...+..++|+..++....   .|+..      ....++......     +++   ++|++.++.+.+. ...|+.. 
T Consensus       158 ~~l~~~~~~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~  234 (765)
T PRK10049        158 QALRNNRLSAPALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATA  234 (765)
T ss_pred             HHHHHCCChHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccch
Confidence            888889999999999887653   33310      111112221111     112   4455555555432 1111111 


Q ss_pred             HHH----HHHHHHHcCCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHH
Q 044352          251 TWN----AMISGFAQSKRENEALKLFKGMLVSGIK-PNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSAL  325 (544)
Q Consensus       251 ~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  325 (544)
                      .+.    ..+..+...|++++|+..|+.+.+.+.+ |+                                    .....+
T Consensus       235 ~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~------------------------------------~a~~~l  278 (765)
T PRK10049        235 DYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPP------------------------------------WAQRWV  278 (765)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCH------------------------------------HHHHHH
Confidence            100    0022233445555555555555543311 11                                    111123


Q ss_pred             HHHHHhcCCHHHHHHHHHhcCCcc-------HHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-----------CCCCH--
Q 044352          326 IDMYSKCGSLKDARTLFEITRIKN-------VASWNAMIGCYGKHGMVDSSIELFERMLEEG-----------MRANE--  385 (544)
Q Consensus       326 ~~~~~~~~~~~~A~~~~~~~~~~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----------~~~~~--  385 (544)
                      ..+|...|++++|+.+|+.+...+       ......+..++...|++++|..+++++....           ..|+.  
T Consensus       279 a~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~  358 (765)
T PRK10049        279 ASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDW  358 (765)
T ss_pred             HHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchH
Confidence            444555555555555555443211       1233444445566666666666666665531           12332  


Q ss_pred             -HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCC-ChhHHHHHHHH
Q 044352          386 -VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYV-TNSMAGAFRNG  462 (544)
Q Consensus       386 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~  462 (544)
                       ..+..+...+...|++++|+..++++..  ..|.+...+..++..+...|++++|++.++++. ..| +...+...+..
T Consensus       359 ~~a~~~~a~~l~~~g~~~eA~~~l~~al~--~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~  436 (765)
T PRK10049        359 LQGQSLLSQVAKYSNDLPQAEMRARELAY--NAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWT  436 (765)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHH
Confidence             3455667778889999999999999877  456667888899999999999999999999874 334 46677777778


Q ss_pred             HhhcCChHHHHHHHHHHHHcCCCCchhHH
Q 044352          463 CNIHGRRDLAVTMGEEFFEMGLRKPDGFV  491 (544)
Q Consensus       463 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  491 (544)
                      +...|++++|+..++++++..|+++.+..
T Consensus       437 al~~~~~~~A~~~~~~ll~~~Pd~~~~~~  465 (765)
T PRK10049        437 ALDLQEWRQMDVLTDDVVAREPQDPGVQR  465 (765)
T ss_pred             HHHhCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            88999999999999999999999886544

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.91  E-value=3e-20  Score=186.15  Aligned_cols=312  Identities=10%  Similarity=-0.021  Sum_probs=175.9

Q ss_pred             HHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHH
Q 044352          187 SGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKREN  266 (544)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  266 (544)
                      .+....|++++|...++++.... +.+...+..+...+...|++++|...++++.+.. +.+...+..++.++...|+++
T Consensus        84 ~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~  161 (656)
T PRK15174         84 ISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKEL  161 (656)
T ss_pred             hhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChH
Confidence            33334444444444444444332 2223334444444444455555555554444331 223344444444555555555


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 044352          267 EALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITR  346 (544)
Q Consensus       267 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  346 (544)
                      +|...++.+..... .+...+.. +..+...|++++|...++.+.+....++......+...+...|++++|...++...
T Consensus       162 eA~~~~~~~~~~~P-~~~~a~~~-~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al  239 (656)
T PRK15174        162 QAISLARTQAQEVP-PRGDMIAT-CLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESAL  239 (656)
T ss_pred             HHHHHHHHHHHhCC-CCHHHHHH-HHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            55555544443321 11111111 12234445555555555544443322222333334455556666666666666544


Q ss_pred             C---ccHHHHHHHHHHHHhcCChHH----HHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCC
Q 044352          347 I---KNVASWNAMIGCYGKHGMVDS----SIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKI  419 (544)
Q Consensus       347 ~---~~~~~~~~l~~~~~~~g~~~~----A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  419 (544)
                      .   .+...+..+...+...|++++    |...+++..... +.+..++..+...+...|++++|...++++.+.  .+.
T Consensus       240 ~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~  316 (656)
T PRK15174        240 ARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPD  316 (656)
T ss_pred             hcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCC
Confidence            3   244556666677777777764    777888877752 335667777788888888888888888887763  344


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCChh-HHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTNS-MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC  497 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  497 (544)
                      +...+..++.+|.+.|++++|...++++. ..|+.. .+..++.++...|++++|+..|+++++.+|++.          
T Consensus       317 ~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~----------  386 (656)
T PRK15174        317 LPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL----------  386 (656)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc----------
Confidence            45667777888888888888888887764 344433 333455677888888888888888888888754          


Q ss_pred             HhcCChHHHHHHHHHHHhcC
Q 044352          498 AADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       498 ~~~g~~~~A~~~~~~~~~~~  517 (544)
                        ...+++|...+....+.-
T Consensus       387 --~~~~~ea~~~~~~~~~~~  404 (656)
T PRK15174        387 --PQSFEEGLLALDGQISAV  404 (656)
T ss_pred             --hhhHHHHHHHHHHHHHhc
Confidence              244456666666666543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.91  E-value=4.2e-20  Score=185.12  Aligned_cols=353  Identities=12%  Similarity=-0.031  Sum_probs=284.4

Q ss_pred             HhCCCHHHHHHHHhhccC------CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHH
Q 044352          159 SKCGLLCSARRVFHGMFE------RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNA  232 (544)
Q Consensus       159 ~~~~~~~~A~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  232 (544)
                      .++.+++.-.-+|....+      .+......++..+.+.|++++|..++......... +...+..++.+....|++++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHH
Confidence            345556555555554433      23334556777888999999999999999877433 34455556677778999999


Q ss_pred             HHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHH
Q 044352          233 AFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCR  312 (544)
Q Consensus       233 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  312 (544)
                      |...|+++.... +.+...+..+...+.+.|++++|...++++.... +.+...+..+..++...|++++|...+..+..
T Consensus        95 A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~  172 (656)
T PRK15174         95 VLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQ  172 (656)
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            999999998874 5567788889999999999999999999999753 44566788889999999999999999998877


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc----cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH
Q 044352          313 MGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK----NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTL  388 (544)
Q Consensus       313 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  388 (544)
                      .... +...+..+ ..+...|++++|...++.+...    +...+..+..++...|++++|+..++++.... +.+...+
T Consensus       173 ~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~  249 (656)
T PRK15174        173 EVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALR  249 (656)
T ss_pred             hCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHH
Confidence            6543 33444343 3478899999999999886643    23344556778889999999999999999863 4467788


Q ss_pred             HHHHHHHhcCCchHH----HHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHH
Q 044352          389 ISVLSACSHGGLVEK----GLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNG  462 (544)
Q Consensus       389 ~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  462 (544)
                      ..+...+...|++++    |...++++.+.  .+.+...+..++..+...|++++|...++++.  .+.+...+..++.+
T Consensus       250 ~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~  327 (656)
T PRK15174        250 RSLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARA  327 (656)
T ss_pred             HHHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            889999999999986    89999999873  45567889999999999999999999999874  34456678888899


Q ss_pred             HhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 044352          463 CNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQ  519 (544)
Q Consensus       463 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  519 (544)
                      +...|++++|+..++++++.+|.++..+..++.++...|++++|+..|+++++....
T Consensus       328 l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        328 LRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            999999999999999999999998877777899999999999999999999876544

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

Probab=99.90  E-value=4.3e-18  Score=156.52  Aligned_cols=507  Identities=11%  Similarity=0.007  Sum_probs=414.2

Q ss_pred             ccccCCCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCc
Q 044352            3 RLIFPINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNV   78 (544)
Q Consensus         3 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~   78 (544)
                      |.++.+.|.|...+-..+.    ..+.+.|+-++.++++- |.+.. .+.++    ++...++.|..++.+..   +.+.
T Consensus       370 RKALe~iP~sv~LWKaAVe----lE~~~darilL~rAveccp~s~d-LwlAl----arLetYenAkkvLNkaRe~iptd~  440 (913)
T KOG0495|consen  370 RKALEHIPRSVRLWKAAVE----LEEPEDARILLERAVECCPQSMD-LWLAL----ARLETYENAKKVLNKAREIIPTDR  440 (913)
T ss_pred             HHHHHhCCchHHHHHHHHh----ccChHHHHHHHHHHHHhccchHH-HHHHH----HHHHHHHHHHHHHHHHHhhCCCCh
Confidence            4456666666666655544    34555688888888888 77777 55544    45566778888776654   7888


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHH----HhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCC--ChhHHH
Q 044352           79 FMLNWMVMASAFTGNFQEAIGYFSLM----REFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFEN--DVSVGN  152 (544)
Q Consensus        79 ~~~~~l~~~~~~~~~~~~A~~~~~~~----~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~  152 (544)
                      ..|-+-...--.+|+.+....++.+-    ...|+..+...|..=...|-..|..-.+..+....+..|+..  -..+|.
T Consensus       441 ~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~  520 (913)
T KOG0495|consen  441 EIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWL  520 (913)
T ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHh
Confidence            89988888888899988888887664    455788888888888888988899988999998888887643  346788


Q ss_pred             HHHHHHHhCCCHHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCC
Q 044352          153 ALIDMYSKCGLLCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGD  229 (544)
Q Consensus       153 ~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  229 (544)
                      .-...|.+.+.++-|..+|....+   .+...|......--..|..++...+|.+....- +-....|......+-..|+
T Consensus       521 ~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agd  599 (913)
T KOG0495|consen  521 DDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGD  599 (913)
T ss_pred             hhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCC
Confidence            888889999999999999988766   455677777766667899999999999998762 3444555556667777899


Q ss_pred             hHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHH
Q 044352          230 SNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHAL  309 (544)
Q Consensus       230 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  309 (544)
                      +..|..++....+.. +.+...|..-+.....+.+++.|..+|.+...  ..|+...|..-+......++.++|.+++++
T Consensus       600 v~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe  676 (913)
T KOG0495|consen  600 VPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEALRLLEE  676 (913)
T ss_pred             cHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHHHHHHH
Confidence            999999999988774 44778899999999999999999999999885  478888888888888889999999999998


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--c-cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH
Q 044352          310 VCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI--K-NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEV  386 (544)
Q Consensus       310 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  386 (544)
                      ..+.- +.-...|..+.+.+.+.++.+.|...|....+  | .+..|-.|...--+.|..-+|..++++..-.+ +-+..
T Consensus       677 ~lk~f-p~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~  754 (913)
T KOG0495|consen  677 ALKSF-PDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNAL  754 (913)
T ss_pred             HHHhC-CchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcch
Confidence            88763 44567888999999999999999999987775  3 45678888888888999999999999998874 66888


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhc
Q 044352          387 TLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIH  466 (544)
Q Consensus       387 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~  466 (544)
                      .|...+..-.+.|+.+.|..+..+..+  .++.+...|..-+....+.++-....+.+++..  .|+.....++..+...
T Consensus       755 lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LWaEaI~le~~~~rkTks~DALkkce--~dphVllaia~lfw~e  830 (913)
T KOG0495|consen  755 LWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCE--HDPHVLLAIAKLFWSE  830 (913)
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhHHHHHHhccCcccchHHHHHHHhcc--CCchhHHHHHHHHHHH
Confidence            999999999999999999999999988  567778888888888888888888888888774  4666677788889999


Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCceEEEec
Q 044352          467 GRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKR  530 (544)
Q Consensus       467 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  530 (544)
                      .++++|+++|+++++.+|++.++|...-..+.+.|.-+.-.++++++...  +|.-|..|+-+.
T Consensus       831 ~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~--EP~hG~~W~avS  892 (913)
T KOG0495|consen  831 KKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA--EPTHGELWQAVS  892 (913)
T ss_pred             HHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCCCcHHHHHh
Confidence            99999999999999999999999999999999999999999999998764  456666776543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.89  E-value=2e-20  Score=179.03  Aligned_cols=299  Identities=13%  Similarity=0.059  Sum_probs=222.1

Q ss_pred             HHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCCC-CC------chhHHHHHHH
Q 044352           16 LDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPN-PN------VFMLNWMVMA   87 (544)
Q Consensus        16 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~------~~~~~~l~~~   87 (544)
                      .+.....+...|+++.|...+.++++. |.+.. ++..++..+...|++++|...++.+.. ++      ...+..++..
T Consensus        38 ~y~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~  116 (389)
T PRK11788         38 DYFKGLNFLLNEQPDKAIDLFIEMLKVDPETVE-LHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQD  116 (389)
T ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCcccHH-HHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence            333445566778888899999998888 65666 888888888888999999888887662 11      2456777888


Q ss_pred             HHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCC----hhHHHHHHHHHHhCCC
Q 044352           88 SAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFEND----VSVGNALIDMYSKCGL  163 (544)
Q Consensus        88 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~  163 (544)
                      +...|++++|+.+|+++.+.. +++..++..++..+...|++++|...++.+.+.+..+.    ...+..+...+...|+
T Consensus       117 ~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  195 (389)
T PRK11788        117 YLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGD  195 (389)
T ss_pred             HHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCC
Confidence            888889999998888888642 34566788888888888888888888888887652221    1234556677788888


Q ss_pred             HHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHh
Q 044352          164 LCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRM  240 (544)
Q Consensus       164 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  240 (544)
                      +++|...|+++.+   .+...+..+...+.+.|++++|.++|+++...+......++..++..|...|++++|...++++
T Consensus       196 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  275 (389)
T PRK11788        196 LDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRA  275 (389)
T ss_pred             HHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8888888888754   2345677777888888888888888888876532222456777888888888888888888888


Q ss_pred             hhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhc---cCchHHHHHHHHHHHHcCCCC
Q 044352          241 TAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGL---TGSIQIGREIHALVCRMGLHI  317 (544)
Q Consensus       241 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~  317 (544)
                      .+.  .|+...+..++..+.+.|++++|..+++++.+.  .|+..++..++..+..   .|+.+++..+++.+.+.++.+
T Consensus       276 ~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~  351 (389)
T PRK11788        276 LEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKR  351 (389)
T ss_pred             HHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhC
Confidence            776  466666677888888888888888888888765  5777777776666553   457778888888887766555


Q ss_pred             CHH
Q 044352          318 DVF  320 (544)
Q Consensus       318 ~~~  320 (544)
                      ++.
T Consensus       352 ~p~  354 (389)
T PRK11788        352 KPR  354 (389)
T ss_pred             CCC
Confidence            544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.89  E-value=2.9e-18  Score=172.19  Aligned_cols=431  Identities=8%  Similarity=-0.002  Sum_probs=253.2

Q ss_pred             HHHhhcCCChHHHHHHhccCCC--CCc-hhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChH
Q 044352           54 VGVYAGCGDVNSARLVFDKIPN--PNV-FMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIK  130 (544)
Q Consensus        54 ~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~  130 (544)
                      +-...+.|+++.|+..|+++..  |+. .....++..+...|+.++|+..+++.... ..........+...+...|+++
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHH
Confidence            3334455555555555555441  111 11224444444555555555555555410 0111112222233444555555


Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChh--hHHHHHHHHhccCChhHHHHHHHHHHHc
Q 044352          131 KGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVV--SWTSMISGYCNVSKVDEAVVLFERMKLE  208 (544)
Q Consensus       131 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~  208 (544)
                      +|..+++.+.+.. |.++..+..++..+...++.++|+..++++.+.++.  .+..++..+...++..+|++.++++.+.
T Consensus       120 ~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~  198 (822)
T PRK14574        120 QALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRL  198 (822)
T ss_pred             HHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence            5555555555543 333444444555555555555555555555443222  2222222222234444466666666555


Q ss_pred             CCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHH------HHHHHHH---H--cCC---CHHHHHHHHHH
Q 044352          209 GLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTW------NAMISGF---A--QSK---RENEALKLFKG  274 (544)
Q Consensus       209 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------~~l~~~~---~--~~~---~~~~a~~~~~~  274 (544)
                      . +-+...+..+...+.+.|-...|.++..+-...- .+....+      ..+++.-   .  ...   -.+.|+.-++.
T Consensus       199 ~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f-~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~  276 (822)
T PRK14574        199 A-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLV-SAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQN  276 (822)
T ss_pred             C-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCcccc-CHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHH
Confidence            2 2334444555555566666655555554432110 0100000      0000000   0  111   23456666666


Q ss_pred             HHHc-CCCCCH-----HHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc
Q 044352          275 MLVS-GIKPNN-----VTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK  348 (544)
Q Consensus       275 ~~~~-~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  348 (544)
                      +... +..|..     ......+.++...+++.++++.++.+...+.+....+-..+..+|...++.++|..+++.+...
T Consensus       277 l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~  356 (822)
T PRK14574        277 LLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYS  356 (822)
T ss_pred             HHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhc
Confidence            5542 112321     2233456677788888999999998888876666778888889999999999999999877532


Q ss_pred             ---------cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-----------CCCH---HHHHHHHHHHhcCCchHHHH
Q 044352          349 ---------NVASWNAMIGCYGKHGMVDSSIELFERMLEEGM-----------RANE---VTLISVLSACSHGGLVEKGL  405 (544)
Q Consensus       349 ---------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----------~~~~---~~~~~l~~~~~~~~~~~~a~  405 (544)
                               +......|.-++...+++++|..+++++.+...           .||+   ..+..++..+...|++.+|+
T Consensus       357 ~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae  436 (822)
T PRK14574        357 DGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQ  436 (822)
T ss_pred             cccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHH
Confidence                     222346788888889999999999999887311           1222   23445566778899999999


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC
Q 044352          406 EIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG  483 (544)
Q Consensus       406 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  483 (544)
                      +.++++..  .-|-|......+...+...|.+.+|.+.++.+.  .+.+..+....+.++...+++++|..+.+.+++..
T Consensus       437 ~~le~l~~--~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~  514 (822)
T PRK14574        437 KKLEDLSS--TAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRS  514 (822)
T ss_pred             HHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhC
Confidence            99999976  457788888889999999999999999997753  34455667777778888899999999999999999


Q ss_pred             CCCchhH
Q 044352          484 LRKPDGF  490 (544)
Q Consensus       484 p~~~~~~  490 (544)
                      |+++.+-
T Consensus       515 Pe~~~~~  521 (822)
T PRK14574        515 PEDIPSQ  521 (822)
T ss_pred             CCchhHH
Confidence            9888554

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.89  E-value=6.7e-18  Score=169.57  Aligned_cols=433  Identities=9%  Similarity=-0.030  Sum_probs=319.3

Q ss_pred             CchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCH--HHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHH
Q 044352           77 NVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNK--FTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNAL  154 (544)
Q Consensus        77 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  154 (544)
                      .+.+-..-+-...+.|+++.|++.|++..+.  .|+.  ..+ .++..+...|+.++|..++++.... -+........+
T Consensus        33 ~~~~~y~~aii~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llal  108 (822)
T PRK14574         33 MADTQYDSLIIRARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASA  108 (822)
T ss_pred             chhHHHHHHHHHHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHH
Confidence            3444444555678999999999999999984  4554  234 7788888889999999999999821 12333344444


Q ss_pred             HHHHHhCCCHHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChH
Q 044352          155 IDMYSKCGLLCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSN  231 (544)
Q Consensus       155 ~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  231 (544)
                      ...+...|++++|.++++++.+   .++..+..++..+...++.++|++.++++...  .|+...+..++..+...++..
T Consensus       109 A~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~  186 (822)
T PRK14574        109 ARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNY  186 (822)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHH
Confidence            6789999999999999999966   34566777788899999999999999999866  566666655555555566776


Q ss_pred             HHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHH------HHHHHHHHh-----hccCch
Q 044352          232 AAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNV------TVTGVLQAG-----GLTGSI  300 (544)
Q Consensus       232 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~-----~~~~~~  300 (544)
                      +|++.++++.+.. +.+...+..+..++.+.|-...|.++.++-... +.+...      .....++.-     ....++
T Consensus       187 ~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~  264 (822)
T PRK14574        187 DALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERF  264 (822)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            7999999999884 456778888899999999999999877653211 111110      011111111     112233


Q ss_pred             H---HHHHHHHHHHHc-CCCCCH-H----HHHHHHHHHHhcCCHHHHHHHHHhcCCc----cHHHHHHHHHHHHhcCChH
Q 044352          301 Q---IGREIHALVCRM-GLHIDV-F----TGSALIDMYSKCGSLKDARTLFEITRIK----NVASWNAMIGCYGKHGMVD  367 (544)
Q Consensus       301 ~---~a~~~~~~~~~~-~~~~~~-~----~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~  367 (544)
                      .   .+..-++.+... +..|.. .    +..-.+-++...|++.++++.++.+...    ...+-..+..+|...++++
T Consensus       265 ~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~  344 (822)
T PRK14574        265 DIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPE  344 (822)
T ss_pred             HHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcH
Confidence            3   344444444432 111221 1    2223455778899999999999999853    3346678899999999999


Q ss_pred             HHHHHHHHHHHcC-----CCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhC----------CCCch---hHHHHHHH
Q 044352          368 SSIELFERMLEEG-----MRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYG----------VKISK---EHYACVVD  429 (544)
Q Consensus       368 ~A~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------~~~~~---~~~~~l~~  429 (544)
                      +|..+|+.+....     .+++......|..++...+++++|..+++++.+...          -.|+.   ..+..++.
T Consensus       345 kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~  424 (822)
T PRK14574        345 KAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQ  424 (822)
T ss_pred             HHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHH
Confidence            9999999997743     122344467889999999999999999999987311          01221   23344577


Q ss_pred             HHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHH
Q 044352          430 MLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAE  507 (544)
Q Consensus       430 ~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  507 (544)
                      .+...|++.+|.+.++++.  .+-+......++..+...|.+.+|+..++.+..++|++..+....+.++...|+|++|.
T Consensus       425 ~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~  504 (822)
T PRK14574        425 SLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQME  504 (822)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHH
Confidence            7889999999999999984  56678889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcC
Q 044352          508 NLRKIMKEKN  517 (544)
Q Consensus       508 ~~~~~~~~~~  517 (544)
                      .+.+.+.+..
T Consensus       505 ~~~~~l~~~~  514 (822)
T PRK14574        505 LLTDDVISRS  514 (822)
T ss_pred             HHHHHHHhhC
Confidence            9988876543

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

Probab=99.87  E-value=5.1e-18  Score=149.54  Aligned_cols=447  Identities=11%  Similarity=0.035  Sum_probs=321.5

Q ss_pred             HHHHHHHHhhcCCChHHHHHHhccCCC----CCchh-HHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHH----HHHHH
Q 044352           49 LKSKLVGVYAGCGDVNSARLVFDKIPN----PNVFM-LNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKF----TFSIV  119 (544)
Q Consensus        49 ~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~-~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~----~~~~l  119 (544)
                      ++..|++-|.....+.+|+..++-+..    ||.-. --.+...+.+..++.+|+..|+..+..-...+..    ..+.+
T Consensus       203 vl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~ni  282 (840)
T KOG2003|consen  203 VLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNI  282 (840)
T ss_pred             HHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhc
Confidence            667788888888889999999987762    33322 2234567788899999999999887643222333    34444


Q ss_pred             HHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccC----------------CChhhHH
Q 044352          120 LKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFE----------------RDVVSWT  183 (544)
Q Consensus       120 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----------------~~~~~~~  183 (544)
                      ...+.+.|.++.|+..|+...+.  .|+..+-..|+-++..-|+.++..+.|.++..                |+....+
T Consensus       283 gvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~  360 (840)
T KOG2003|consen  283 GVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLN  360 (840)
T ss_pred             CeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHH
Confidence            45678999999999999999887  47777666677777788999999999998843                1222222


Q ss_pred             H-----HHHHHhccCC--hhHHHHHHHHHHHcCCCCCHhh-------------H--------HHHHHHHHhcCChHHHHH
Q 044352          184 S-----MISGYCNVSK--VDEAVVLFERMKLEGLEPNQFT-------------Y--------NAIIASYARRGDSNAAFA  235 (544)
Q Consensus       184 ~-----l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~-------------~--------~~l~~~~~~~~~~~~a~~  235 (544)
                      .     .+.-..+.+.  .+++.-.-.++..--+.|+-..             +        ..-...+.+.|+++.|.+
T Consensus       361 eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aie  440 (840)
T KOG2003|consen  361 EAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIE  440 (840)
T ss_pred             HHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHH
Confidence            2     2222222221  2222222222222112222110             0        111234678899999999


Q ss_pred             HHHHhhhCCCCCCHhHHHHHHHHHH--cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHc
Q 044352          236 FFSRMTAEGFVPDLVTWNAMISGFA--QSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRM  313 (544)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  313 (544)
                      +++-+.+..-......-+.|...+.  .-.++..|..+-+..+... ..+......-.......|+++.|...+++....
T Consensus       441 ilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~n  519 (840)
T KOG2003|consen  441 ILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALNN  519 (840)
T ss_pred             HHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHcC
Confidence            9998886543333333333333222  2446777877777766433 445555555555566789999999999999876


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcC---CccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 044352          314 GLHIDVFTGSALIDMYSKCGSLKDARTLFEITR---IKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLIS  390 (544)
Q Consensus       314 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  390 (544)
                      ...... ....+.-.+...|++++|+++|-++.   ..+..+...+...|-...+..+|++++.+.... ++.++.++..
T Consensus       520 dasc~e-alfniglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilsk  597 (840)
T KOG2003|consen  520 DASCTE-ALFNIGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSK  597 (840)
T ss_pred             chHHHH-HHHHhcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHH
Confidence            533333 33344556778999999999997665   467778888899999999999999999988775 6678999999


Q ss_pred             HHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCChhHHHHHHHH-HhhcCC
Q 044352          391 VLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTNSMAGAFRNG-CNIHGR  468 (544)
Q Consensus       391 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~-~~~~g~  468 (544)
                      +...|.+.|+-..|.+++-..-+  -++.+.++..+|...|....-+++|+.+|+++. ..|+..-|..++.. +.+.|+
T Consensus       598 l~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgn  675 (840)
T KOG2003|consen  598 LADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGN  675 (840)
T ss_pred             HHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhccc
Confidence            99999999999999998776654  578889999999999999999999999999874 78999999888775 567899


Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCC
Q 044352          469 RDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGE  502 (544)
Q Consensus       469 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  502 (544)
                      +++|...|+......|.+...+..|..++-..|.
T Consensus       676 yqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  676 YQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            9999999999999999999999999999988874

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

Probab=99.86  E-value=2.1e-16  Score=151.20  Aligned_cols=369  Identities=11%  Similarity=0.037  Sum_probs=277.1

Q ss_pred             cCCCCCCcc--hHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCch
Q 044352            6 FPINNLSVN--YLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVF   79 (544)
Q Consensus         6 ~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~   79 (544)
                      .+...++++  .+...++.+...|++++|..++.++++. |.+.. +|..|+.+|-..|+.+++...+-.+-   |.|..
T Consensus       130 r~~~~l~~~l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~~~~-ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e  208 (895)
T KOG2076|consen  130 RGKSKLAPELRQLLGEANNLFARGDLEEAEEILMEVIKQDPRNPI-AYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYE  208 (895)
T ss_pred             CcccccCHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCccchh-hHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChH
Confidence            334444553  4445566667779999999999999999 66777 99999999999999999998776543   77788


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHH----HHH
Q 044352           80 MLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGN----ALI  155 (544)
Q Consensus        80 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~l~  155 (544)
                      -|..+.......|++.+|.-.|.+.++.. +++...+-.-...|-+.|+...|...+.++.....+.|..-..    ..+
T Consensus       209 ~W~~ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~  287 (895)
T KOG2076|consen  209 LWKRLADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVA  287 (895)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHH
Confidence            99999999999999999999999999864 3355555555677889999999999999999885333333222    345


Q ss_pred             HHHHhCCCHHHHHHHHhhccC-----CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhH-------------
Q 044352          156 DMYSKCGLLCSARRVFHGMFE-----RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTY-------------  217 (544)
Q Consensus       156 ~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------------  217 (544)
                      +.+...++-+.|.+.++....     -+...++.++..+.+...++.+......+......+|..-+             
T Consensus       288 ~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~  367 (895)
T KOG2076|consen  288 HYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNAL  367 (895)
T ss_pred             HHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhcccccccc
Confidence            667777888999998888755     24457889999999999999999888887762222222211             


Q ss_pred             -------------HHHHHHHHhcCChHHHHHHHHHhhhCCC--CCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC
Q 044352          218 -------------NAIIASYARRGDSNAAFAFFSRMTAEGF--VPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKP  282 (544)
Q Consensus       218 -------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  282 (544)
                                   ..++-++...+..+....+...+.+..+  .-+...|.-+..+|.+.|++..|+.+|..+......-
T Consensus       368 ~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~  447 (895)
T KOG2076|consen  368 CEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQ  447 (895)
T ss_pred             ccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCcccc
Confidence                         1233344455555555556666666653  3356778889999999999999999999999765555


Q ss_pred             CHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccH------------
Q 044352          283 NNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNV------------  350 (544)
Q Consensus       283 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~------------  350 (544)
                      +...|..+..++...|.++.|...+..+.... +.+..+-..|...+.+.|+.++|.+.++.+..+|.            
T Consensus       448 ~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~  526 (895)
T KOG2076|consen  448 NAFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPER  526 (895)
T ss_pred             chhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHH
Confidence            67789999999999999999999999998875 44667777888999999999999999999876652            


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          351 ASWNAMIGCYGKHGMVDSSIELFERML  377 (544)
Q Consensus       351 ~~~~~l~~~~~~~g~~~~A~~~~~~~~  377 (544)
                      .........+...|+.++-+.+...|+
T Consensus       527 ri~~~r~d~l~~~gk~E~fi~t~~~Lv  553 (895)
T KOG2076|consen  527 RILAHRCDILFQVGKREEFINTASTLV  553 (895)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            122333445566677666554444443

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

Probab=99.83  E-value=2.3e-15  Score=144.15  Aligned_cols=512  Identities=11%  Similarity=0.054  Sum_probs=336.5

Q ss_pred             cccCCCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCch
Q 044352            4 LIFPINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVF   79 (544)
Q Consensus         4 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~   79 (544)
                      +.+..+|..+.+|..|...+-.+|+.+.+...+-.+... |.+.. .|..+.....+.|.++.|+-+|.+++   |++..
T Consensus       164 EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e-~W~~ladls~~~~~i~qA~~cy~rAI~~~p~n~~  242 (895)
T KOG2076|consen  164 EVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYE-LWKRLADLSEQLGNINQARYCYSRAIQANPSNWE  242 (895)
T ss_pred             HHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChH-HHHHHHHHHHhcccHHHHHHHHHHHHhcCCcchH
Confidence            456788999999999999999999999999888777777 77777 99999999999999999999999988   44544


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHH----HHHHHHHHhhCCCChHHHHHHHHHHHHcC-CCCChhHHHHH
Q 044352           80 MLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKF----TFSIVLKACVGLLDIKKGKQVHAVATQMG-FENDVSVGNAL  154 (544)
Q Consensus        80 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l  154 (544)
                      ...--+..|-+.|+...|.+.|.++.+...+.|..    .-..+++.+...++-+.|.+.++.....+ -..+...++.+
T Consensus       243 ~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~  322 (895)
T KOG2076|consen  243 LIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNIL  322 (895)
T ss_pred             HHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHH
Confidence            55556678889999999999999999864322222    23344566777787799999888877632 23455677888


Q ss_pred             HHHHHhCCCHHHHHHHHhhccC----CC----------------------hhhHH----HHHHHHhccCChhHHHHHHHH
Q 044352          155 IDMYSKCGLLCSARRVFHGMFE----RD----------------------VVSWT----SMISGYCNVSKVDEAVVLFER  204 (544)
Q Consensus       155 ~~~~~~~~~~~~A~~~~~~~~~----~~----------------------~~~~~----~l~~~~~~~~~~~~a~~~~~~  204 (544)
                      +..+.+...++.|.........    +|                      ..+|.    -++-++......+....+...
T Consensus       323 ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~  402 (895)
T KOG2076|consen  323 AELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHF  402 (895)
T ss_pred             HHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHHH
Confidence            8889999999988877665522    11                      11111    122333444444444455555


Q ss_pred             HHHcCC--CCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC
Q 044352          205 MKLEGL--EPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKP  282 (544)
Q Consensus       205 ~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  282 (544)
                      +....+  .-+...|.-+..++...|.+.+|+++|..+......-+...|-.+..+|...|.++.|.+.|...+... +.
T Consensus       403 l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~  481 (895)
T KOG2076|consen  403 LVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA-PD  481 (895)
T ss_pred             HHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CC
Confidence            555553  334556777888888888888898888888877444556788888888888888888888888888653 33


Q ss_pred             CHHHHHHHHHHhhccCchHHHHHHHHHHHH--------cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcC--------
Q 044352          283 NNVTVTGVLQAGGLTGSIQIGREIHALVCR--------MGLHIDVFTGSALIDMYSKCGSLKDARTLFEITR--------  346 (544)
Q Consensus       283 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--------  346 (544)
                      +...-..+...+...|+.++|.+.+..+..        .+..|...........+.+.|+.++=..+-..+.        
T Consensus       482 ~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~~~~~~~~  561 (895)
T KOG2076|consen  482 NLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTLVDDFLKKRY  561 (895)
T ss_pred             chhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence            444555666777888888888888877432        2233444444445555666666554222111000        


Q ss_pred             --------------------------------Cc-------------------------cH----HHHHHHHHHHHhcCC
Q 044352          347 --------------------------------IK-------------------------NV----ASWNAMIGCYGKHGM  365 (544)
Q Consensus       347 --------------------------------~~-------------------------~~----~~~~~l~~~~~~~g~  365 (544)
                                                      .+                         ..    ..+..++.++++.++
T Consensus       562 ~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwfel~~e~i~~L~k~~r  641 (895)
T KOG2076|consen  562 IFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWFELFRELILSLAKLQR  641 (895)
T ss_pred             hcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHHHHHHHHHHHHHHHHh
Confidence                                            00                         00    123456677888999


Q ss_pred             hHHHHHHHHHHHHcCC--CCCH---HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCch---hHHHHHHHHH------
Q 044352          366 VDSSIELFERMLEEGM--RANE---VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISK---EHYACVVDML------  431 (544)
Q Consensus       366 ~~~A~~~~~~~~~~~~--~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~------  431 (544)
                      +++|+.+...+.....  .++.   ..-...+.+++..+++..|...++.+...+++..++   ..|+......      
T Consensus       642 ~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q~~l~n~~~s~~~~~~q~  721 (895)
T KOG2076|consen  642 VQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQLNLWNLDFSYFSKYGQR  721 (895)
T ss_pred             HHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            9999999988887542  2222   123445566778899999999999888764443221   2232111111      


Q ss_pred             -----------------------------HhcCCHHHHHHHHHhC-CCCCC-hhHHHHHHHHHh----------hcCChH
Q 044352          432 -----------------------------CRSGRMVEAYDLLRQV-PMYVT-NSMAGAFRNGCN----------IHGRRD  470 (544)
Q Consensus       432 -----------------------------~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~----------~~g~~~  470 (544)
                                                   ...+.+..|+..+-++ ...|+ |..-..++.++.          ++-..-
T Consensus       722 v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd~Pl~nl~lglafih~a~qr~v~~Rh~~i~  801 (895)
T KOG2076|consen  722 VCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPDSPLINLCLGLAFIHLALQRRVSNRHAQIA  801 (895)
T ss_pred             HHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence                                         2234455555444332 12233 222112221221          112344


Q ss_pred             HHHHHHHHHHHcCCC--CchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          471 LAVTMGEEFFEMGLR--KPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       471 ~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ++..++.+..++...  .-.++..+|.+|...|-..-|..+|+++++..
T Consensus       802 qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~  850 (895)
T KOG2076|consen  802 QGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVS  850 (895)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCC
Confidence            555555555555432  44788899999999999999999999998654

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

Probab=99.83  E-value=3.7e-15  Score=132.39  Aligned_cols=457  Identities=13%  Similarity=0.067  Sum_probs=346.8

Q ss_pred             hHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHh
Q 044352           15 YLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAF   90 (544)
Q Consensus        15 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~   90 (544)
                      .+...++---.++++..|..+++.++.. ..+.. +|...+.+-.++..+..|+.++++..   |.-...|...+..--.
T Consensus        75 ~WikYaqwEesq~e~~RARSv~ERALdvd~r~it-LWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~  153 (677)
T KOG1915|consen   75 VWIKYAQWEESQKEIQRARSVFERALDVDYRNIT-LWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEM  153 (677)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHhcccccch-HHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHH
Confidence            3444444444677889999999999999 67777 99999999999999999999999987   4444568888877788


Q ss_pred             cCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHH
Q 044352           91 TGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRV  170 (544)
Q Consensus        91 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  170 (544)
                      .|+...|.++|++..+  ..|+...|.+.+..-.+-+.++.|..+++..+-.  .|+...|......-.++|+...|..+
T Consensus       154 LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~V  229 (677)
T KOG1915|consen  154 LGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSV  229 (677)
T ss_pred             hcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHH
Confidence            9999999999999988  6899999999999999999999999999999865  59999999999999999999999999


Q ss_pred             HhhccC--C----ChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCH---hhHHHHHHHHHhcCChHHHHHH-----
Q 044352          171 FHGMFE--R----DVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQ---FTYNAIIASYARRGDSNAAFAF-----  236 (544)
Q Consensus       171 ~~~~~~--~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~-----  236 (544)
                      |+...+  .    +...+.++...-..+..++.|.-+|.-.++.  -|..   ..|..+...--+-|+.....+.     
T Consensus       230 yerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~--~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KR  307 (677)
T KOG1915|consen  230 YERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH--IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKR  307 (677)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhh
Confidence            998865  2    2334555555555677888999898887765  3332   3344333333344554333322     


Q ss_pred             ---HHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHH-------HHHHHHHH---hhccCchHHH
Q 044352          237 ---FSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNV-------TVTGVLQA---GGLTGSIQIG  303 (544)
Q Consensus       237 ---~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~---~~~~~~~~~a  303 (544)
                         ++.+++.+ +-|-.+|.-.++.-...|+.+...++|+..+.. ++|-..       +|..+--+   -....|++.+
T Consensus       308 k~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ert  385 (677)
T KOG1915|consen  308 KFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERT  385 (677)
T ss_pred             hhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Confidence               34444443 668889998999888999999999999999854 455321       12211111   2356789999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHH----HHHHHhcCCHHHHHHHHHhcCC--ccHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          304 REIHALVCRMGLHIDVFTGSAL----IDMYSKCGSLKDARTLFEITRI--KNVASWNAMIGCYGKHGMVDSSIELFERML  377 (544)
Q Consensus       304 ~~~~~~~~~~~~~~~~~~~~~l----~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  377 (544)
                      .++++..++. ++....+|..+    ...-.++.++..|.+++.....  |...++...|..-.+.++++.+..+|++.+
T Consensus       386 r~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfl  464 (677)
T KOG1915|consen  386 RQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFL  464 (677)
T ss_pred             HHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            9999999884 34444555444    3444578899999999987774  677788889998899999999999999999


Q ss_pred             HcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCChhHH
Q 044352          378 EEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTNSMA  456 (544)
Q Consensus       378 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~  456 (544)
                      +-+ +.|..++......-...|+.+.|..+|.-+.+..........|.+.+..-...|.++.|..+|+++. ..+....|
T Consensus       465 e~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kvW  543 (677)
T KOG1915|consen  465 EFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKVW  543 (677)
T ss_pred             hcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchHH
Confidence            963 4577889998888889999999999999988742222334456666777778999999999999875 44555677


Q ss_pred             HHHHHHHh-----hcC-----------ChHHHHHHHHHHHHc
Q 044352          457 GAFRNGCN-----IHG-----------RRDLAVTMGEEFFEM  482 (544)
Q Consensus       457 ~~l~~~~~-----~~g-----------~~~~A~~~~~~~~~~  482 (544)
                      .+.+..-.     +.+           +...|..+|+++...
T Consensus       544 isFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~~  585 (677)
T KOG1915|consen  544 ISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANTY  585 (677)
T ss_pred             HhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHHH
Confidence            66665333     334           677899999998763

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

Probab=99.82  E-value=8.2e-17  Score=146.08  Aligned_cols=491  Identities=9%  Similarity=0.004  Sum_probs=330.9

Q ss_pred             CCCCcchHHHHHHHhhccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCC--CCCchhHHHHHH
Q 044352            9 NNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP--NPNVFMLNWMVM   86 (544)
Q Consensus         9 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~   86 (544)
                      +..+..-+..+++-+..+.++..|.-+.+++.....++. ....+++++.-.|+++.|..+...-.  ..|..+......
T Consensus        12 d~~s~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~~dp~-d~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~cryL~~~   90 (611)
T KOG1173|consen   12 DELSLEKYRRLVRDALMQHRYKTALFWADKVAGLTNDPA-DIYWLAQVLYLGRQYERAAHLITTYKLEKRDIACRYLAAK   90 (611)
T ss_pred             ccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHhccCChH-HHHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHHHHHH
Confidence            345667788888888899999999999999988844444 45678999999999999988877644  778888888889


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHH
Q 044352           87 ASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCS  166 (544)
Q Consensus        87 ~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  166 (544)
                      ++.+..++++|..++..-.   +..+...|-..-.  ...-..+.+.    +.  .+......+.-.-...|....+.++
T Consensus        91 ~l~~lk~~~~al~vl~~~~---~~~~~f~yy~~~~--~~~l~~n~~~----~~--~~~~~essic~lRgk~y~al~n~~~  159 (611)
T KOG1173|consen   91 CLVKLKEWDQALLVLGRGH---VETNPFSYYEKDA--ANTLELNSAG----ED--LMINLESSICYLRGKVYVALDNREE  159 (611)
T ss_pred             HHHHHHHHHHHHHHhcccc---hhhcchhhcchhh--hceeccCccc----cc--ccccchhceeeeeeehhhhhccHHH
Confidence            9999999999999887431   1111111110000  0000011111    00  0111122222233345666778888


Q ss_pred             HHHHHhhccCCChhhHHHHHHHHhccC-ChhHHHHHHHHHHHc-CCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044352          167 ARRVFHGMFERDVVSWTSMISGYCNVS-KVDEAVVLFERMKLE-GLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEG  244 (544)
Q Consensus       167 A~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  244 (544)
                      |...|.+....|+..+..+...-...- -..+-..++..+.-. -...+......+.........-+.....-.+..-.+
T Consensus       160 ar~~Y~~Al~~D~~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~  239 (611)
T KOG1173|consen  160 ARDKYKEALLADAKCFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIG  239 (611)
T ss_pred             HHHHHHHHHhcchhhHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhh
Confidence            888888887777776665543322110 111222222221000 001112222222221110000001111111111123


Q ss_pred             CCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHH
Q 044352          245 FVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSA  324 (544)
Q Consensus       245 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  324 (544)
                      ...++........-+...+++.+..++...+.+.. ++....+..-|.++...|+...-..+-..+.+.- |..+.+|..
T Consensus       240 l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~a  317 (611)
T KOG1173|consen  240 LAENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFA  317 (611)
T ss_pred             hhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhh
Confidence            35566666666777888899999999999988764 5566666666778888888888887777777764 446778888


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCCcc---HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCch
Q 044352          325 LIDMYSKCGSLKDARTLFEITRIKN---VASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLV  401 (544)
Q Consensus       325 l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  401 (544)
                      +.-.|...|+..+|++.|.+...-|   ...|-.+..+|.-.|..++|+..+..+-+. ++-....+..+..-|.+.+++
T Consensus       318 Vg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~  396 (611)
T KOG1173|consen  318 VGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNL  396 (611)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccH
Confidence            8888888899999999998777543   357999999999999999999999888774 333444455566678889999


Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC---------CCCChhHHHHHHHHHhhcCChHHH
Q 044352          402 EKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP---------MYVTNSMAGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       402 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~~~~~~~l~~~~~~~g~~~~A  472 (544)
                      +.|.++|.+...  ..|.|+.+++.++-.....+.+.+|..+|+...         .....++++.++.+|++.+.+++|
T Consensus       397 kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eA  474 (611)
T KOG1173|consen  397 KLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEA  474 (611)
T ss_pred             HHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHH
Confidence            999999998875  446667778888877888889999999887652         112456788999999999999999


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          473 VTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      +..+++++.+.|.++.++..+|.+|...|+++.|++.|.+.+-.
T Consensus       475 I~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l  518 (611)
T KOG1173|consen  475 IDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALAL  518 (611)
T ss_pred             HHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999987743

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

Probab=99.81  E-value=2e-14  Score=132.77  Aligned_cols=465  Identities=13%  Similarity=0.050  Sum_probs=384.3

Q ss_pred             HHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC--------CCCchhHHHHHHHH
Q 044352           18 CLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP--------NPNVFMLNWMVMAS   88 (544)
Q Consensus        18 ~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~~~~~~l~~~~   88 (544)
                      .+..++++..-++.|+.+++++.+. |.+.. +|..-...--.+|+.+....+.++-.        .-|...|-.=...|
T Consensus       411 dLwlAlarLetYenAkkvLNkaRe~iptd~~-IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~  489 (913)
T KOG0495|consen  411 DLWLALARLETYENAKKVLNKAREIIPTDRE-IWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEAC  489 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCCCChh-HHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHH
Confidence            3555677888999999999999999 88888 99988888889999998888877654        35666788888888


Q ss_pred             HhcCCHHHHHHHHHHHHhcccccC--HHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHH
Q 044352           89 AFTGNFQEAIGYFSLMREFIYRCN--KFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCS  166 (544)
Q Consensus        89 ~~~~~~~~A~~~~~~~~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  166 (544)
                      -..|..-.+..+....+..|+.-.  ..||..-...|.+.+.++-|..+|...++. ++-+..+|......--..|..+.
T Consensus       490 e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Es  568 (913)
T KOG0495|consen  490 EDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRES  568 (913)
T ss_pred             hhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHH
Confidence            888999888888888888776543  358888889999999999999999999987 46777888888887778899999


Q ss_pred             HHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044352          167 ARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAE  243 (544)
Q Consensus       167 A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  243 (544)
                      ...+|++...   .....|......+-..|+...|..++....+.. +.+...|-..+.......+++.|..+|.+....
T Consensus       569 l~Allqkav~~~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~  647 (913)
T KOG0495|consen  569 LEALLQKAVEQCPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI  647 (913)
T ss_pred             HHHHHHHHHHhCCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc
Confidence            9999999855   456678888888888999999999999998775 446778888888999999999999999998765


Q ss_pred             CCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHH
Q 044352          244 GFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPN-NVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTG  322 (544)
Q Consensus       244 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  322 (544)
                        .|+...|.--+...--.++.++|.+++++.++.  .|+ ...|..+.+.+-+.++.+.|...|..-.+. ++..+..|
T Consensus       648 --sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLW  722 (913)
T KOG0495|consen  648 --SGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLW  722 (913)
T ss_pred             --CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHH
Confidence              788888887777777789999999999998865  455 446777788889999999999888765554 45567788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 044352          323 SALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGG  399 (544)
Q Consensus       323 ~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  399 (544)
                      ..+...-.+.|.+-.|..++++..-   .+...|...|+.-.+.|+.+.|..++.+.++. .+.+...|...+...-+.+
T Consensus       723 llLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~  801 (913)
T KOG0495|consen  723 LLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQ  801 (913)
T ss_pred             HHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcc
Confidence            8888888899999999999998774   36679999999999999999999999999886 5666677777777766666


Q ss_pred             chHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-C-CCChhHHHHHHHHHhhcCChHHHHHHHH
Q 044352          400 LVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-M-YVTNSMAGAFRNGCNIHGRRDLAVTMGE  477 (544)
Q Consensus       400 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  477 (544)
                      +-......+++      ...|+.+...+...+....++++|.+.|.+.. . +....+|..+...+.++|.-+.-.+++.
T Consensus       802 rkTks~DALkk------ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~  875 (913)
T KOG0495|consen  802 RKTKSIDALKK------CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLK  875 (913)
T ss_pred             cchHHHHHHHh------ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHH
Confidence            64444444332      35677888899999999999999999999875 3 3446788888889999999999999999


Q ss_pred             HHHHcCCCCchhHHHHHHHH
Q 044352          478 EFFEMGLRKPDGFVMLSNIC  497 (544)
Q Consensus       478 ~~~~~~p~~~~~~~~l~~~~  497 (544)
                      ....-+|.+...|.....--
T Consensus       876 ~c~~~EP~hG~~W~avSK~i  895 (913)
T KOG0495|consen  876 KCETAEPTHGELWQAVSKDI  895 (913)
T ss_pred             HHhccCCCCCcHHHHHhhhH
Confidence            99999999888887765543

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

Probab=99.80  E-value=9.1e-16  Score=135.55  Aligned_cols=432  Identities=10%  Similarity=0.067  Sum_probs=301.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHH-HHHHHhhCCCChHHHHHHHHHHHHcCCCCC----hhHHHHHH
Q 044352           81 LNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFS-IVLKACVGLLDIKKGKQVHAVATQMGFEND----VSVGNALI  155 (544)
Q Consensus        81 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~  155 (544)
                      ...|.+-|..+..+.+|+..|+-+.+....|+...+. .+...+.+.+.+.+|++.+...+..-...+    ..+.+.+.
T Consensus       204 l~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nig  283 (840)
T KOG2003|consen  204 LFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIG  283 (840)
T ss_pred             HHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcC
Confidence            3345566677778899999999998887778776543 244567788999999999998887632222    23445555


Q ss_pred             HHHHhCCCHHHHHHHHhhccC--CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhH--------HHHHHHHH
Q 044352          156 DMYSKCGLLCSARRVFHGMFE--RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTY--------NAIIASYA  225 (544)
Q Consensus       156 ~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--------~~l~~~~~  225 (544)
                      -.+.+.|+++.|+..|+.+.+  |+..+-..++-++...|+.++..+.|.+|...-..||..-|        ..|+.-..
T Consensus       284 vtfiq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai  363 (840)
T KOG2003|consen  284 VTFIQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAI  363 (840)
T ss_pred             eeEEecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHH
Confidence            567889999999999999865  66655445555666789999999999999765434433322        12222111


Q ss_pred             hc--------CChHHHHHHH---HHhhhCCCCCCHhH---H----------H--------HHHHHHHcCCCHHHHHHHHH
Q 044352          226 RR--------GDSNAAFAFF---SRMTAEGFVPDLVT---W----------N--------AMISGFAQSKRENEALKLFK  273 (544)
Q Consensus       226 ~~--------~~~~~a~~~~---~~~~~~~~~~~~~~---~----------~--------~l~~~~~~~~~~~~a~~~~~  273 (544)
                      +.        .+-..|.+..   -++..--+.|+...   |          .        .-..-+.+.|+++.|+++++
T Consensus       364 ~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilk  443 (840)
T KOG2003|consen  364 KNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILK  443 (840)
T ss_pred             hhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHH
Confidence            11        1111222222   22221122333110   1          0        01234678999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHhh--ccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHH
Q 044352          274 GMLVSGIKPNNVTVTGVLQAGG--LTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVA  351 (544)
Q Consensus       274 ~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  351 (544)
                      -+.+..-+.-...-+.+...+.  ...++..|.++-+...... ..++.....-.......|++++|.+.+++....|..
T Consensus       444 v~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndas  522 (840)
T KOG2003|consen  444 VFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDAS  522 (840)
T ss_pred             HHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchH
Confidence            8876543333333333333332  3456777777777665543 234444444444455689999999999999887665


Q ss_pred             HHHH---HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 044352          352 SWNA---MIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVV  428 (544)
Q Consensus       352 ~~~~---l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  428 (544)
                      .-.+   +...+-..|+.++|++.|-++..- +..+..++..+...|....+...|++++.+...  -++.|+.++..|.
T Consensus       523 c~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~s--lip~dp~ilskl~  599 (840)
T KOG2003|consen  523 CTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIPNDPAILSKLA  599 (840)
T ss_pred             HHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCCCCHHHHHHHH
Confidence            4333   334567789999999999988764 455778888999999999999999999988865  6788899999999


Q ss_pred             HHHHhcCCHHHHHHHHHh-CC-CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHH
Q 044352          429 DMLCRSGRMVEAYDLLRQ-VP-MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEA  506 (544)
Q Consensus       429 ~~~~~~g~~~~A~~~~~~-~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  506 (544)
                      ..|-+.|+..+|.+.+-. .. .+.+..+...++.-|....-.++|+.+|+++.-+.|+.......++.++.+.|++.+|
T Consensus       600 dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka  679 (840)
T KOG2003|consen  600 DLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKA  679 (840)
T ss_pred             HHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHH
Confidence            999999999999988644 33 4556777777777777777899999999999999997777777778888899999999


Q ss_pred             HHHHHHHHhc
Q 044352          507 ENLRKIMKEK  516 (544)
Q Consensus       507 ~~~~~~~~~~  516 (544)
                      .++|+....+
T Consensus       680 ~d~yk~~hrk  689 (840)
T KOG2003|consen  680 FDLYKDIHRK  689 (840)
T ss_pred             HHHHHHHHHh
Confidence            9999998765

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.79  E-value=3.1e-14  Score=125.07  Aligned_cols=424  Identities=14%  Similarity=0.140  Sum_probs=269.2

Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhh--CCCChHHH-HHHHHHHHHcCCCCChhHHHHH
Q 044352           78 VFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACV--GLLDIKKG-KQVHAVATQMGFENDVSVGNAL  154 (544)
Q Consensus        78 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~--~~~~~~~a-~~~~~~~~~~~~~~~~~~~~~l  154 (544)
                      +.+=|.++.. ..+|....+.-+|+.|.+.|++.+...-..+++..+  ...+..-+ .+.|-.|...| +.+..+|   
T Consensus       116 V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~-E~S~~sW---  190 (625)
T KOG4422|consen  116 VETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSSW---  190 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-ccccccc---
Confidence            3455555553 457889999999999999988777766555554322  22222211 12222333333 2333333   


Q ss_pred             HHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHH
Q 044352          155 IDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAF  234 (544)
Q Consensus       155 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  234 (544)
                           +.|...+   ++-+.......++..||.++|+-...+.|.+++++-.....+.+..+||.+|.+-.-..+    .
T Consensus       191 -----K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K  258 (625)
T KOG4422|consen  191 -----KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----K  258 (625)
T ss_pred             -----ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----H
Confidence                 2343333   455555566677888888888888888888888887777677888888887765443222    5


Q ss_pred             HHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHH----HHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHH-HHHHHHH
Q 044352          235 AFFSRMTAEGFVPDLVTWNAMISGFAQSKRENE----ALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQI-GREIHAL  309 (544)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~  309 (544)
                      ++..+|.+..+.||..|+|+++.+..+.|+++.    |.+++.+|.+-|+.|...+|..++..+++.++..+ +..++..
T Consensus       259 ~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~d  338 (625)
T KOG4422|consen  259 KLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWIND  338 (625)
T ss_pred             HHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHH
Confidence            677778877778888888888888888887764    45667777788888888888888888777777643 3333333


Q ss_pred             HHH----cCC----CCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--------cc---HHHHHHHHHHHHhcCChHHHH
Q 044352          310 VCR----MGL----HIDVFTGSALIDMYSKCGSLKDARTLFEITRI--------KN---VASWNAMIGCYGKHGMVDSSI  370 (544)
Q Consensus       310 ~~~----~~~----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--------~~---~~~~~~l~~~~~~~g~~~~A~  370 (544)
                      +..    ..+    +.+...|...+..|....+.+.|.++-.-...        ++   ..-|..+....++....+...
T Consensus       339 I~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~  418 (625)
T KOG4422|consen  339 IQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTL  418 (625)
T ss_pred             HHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            322    222    22344556667777777777777766554432        11   224556666777777778888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC-CH--------HH--
Q 044352          371 ELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSG-RM--------VE--  439 (544)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~--------~~--  439 (544)
                      ..|+.|.-.-+-|+..+...++++....+.++-..++|..++.- |..........+...+++.. +.        ..  
T Consensus       419 ~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~-ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~  497 (625)
T KOG4422|consen  419 KWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEY-GHTFRSDLREEILMLLARDKLHPLTPEREQLQVAF  497 (625)
T ss_pred             HHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHh-hhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHH
Confidence            88888877767778888888888888888888888888777664 65555555555555555443 11        11  


Q ss_pred             ---HHHHHHh-------CC-CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC---CCCc--hhHHHHHHHHHhcCCh
Q 044352          440 ---AYDLLRQ-------VP-MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG---LRKP--DGFVMLSNICAADGEW  503 (544)
Q Consensus       440 ---A~~~~~~-------~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---p~~~--~~~~~l~~~~~~~g~~  503 (544)
                         |..+++.       +. ..-.....+.++..+.+.|.+++|-+++....+..   |..|  .+..-+...-...+..
T Consensus       498 ak~aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~sp  577 (625)
T KOG4422|consen  498 AKCAADIKEAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSP  577 (625)
T ss_pred             HHHHHHHHHHHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCH
Confidence               1111111       11 23344555666667778888888888888886543   3333  2344556666777888


Q ss_pred             HHHHHHHHHHHhcCCC
Q 044352          504 HEAENLRKIMKEKNVQ  519 (544)
Q Consensus       504 ~~A~~~~~~~~~~~~~  519 (544)
                      ..|+.+++-+...+..
T Consensus       578 sqA~~~lQ~a~~~n~~  593 (625)
T KOG4422|consen  578 SQAIEVLQLASAFNLP  593 (625)
T ss_pred             HHHHHHHHHHHHcCch
Confidence            8888888888766553

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.79  E-value=6.9e-14  Score=122.93  Aligned_cols=423  Identities=14%  Similarity=0.156  Sum_probs=223.7

Q ss_pred             CCCcchHHHHHHHhhccchhhhhhHHhHHHhhc--ccchhhHHHHHHHHhhc--CCChH---------------------
Q 044352           10 NLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN--DLNIFSLKSKLVGVYAG--CGDVN---------------------   64 (544)
Q Consensus        10 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~--~g~~~---------------------   64 (544)
                      |.+..+=+.++. ...+|.+..+.-+|+.|...  +-+.. +...+.+.-+-  ..+.-                     
T Consensus       113 ~~~V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~k-vq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW  190 (625)
T KOG4422|consen  113 PLQVETENNLLK-MISSREVKDSCILYERMRSENVDVSEK-VQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW  190 (625)
T ss_pred             chhhcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHH-HHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc
Confidence            444455555555 44778999999999999888  54554 55555443221  11111                     


Q ss_pred             ---HHHHHhccCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHH
Q 044352           65 ---SARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQ  141 (544)
Q Consensus        65 ---~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  141 (544)
                         ...+++-+..|.+..++..||.++++--..+.|.++|++......+.+..+|+.+|.+-.    +....++..+|..
T Consensus       191 K~G~vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S----~~~~K~Lv~EMis  266 (625)
T KOG4422|consen  191 KSGAVADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASS----YSVGKKLVAEMIS  266 (625)
T ss_pred             ccccHHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHH----hhccHHHHHHHHH
Confidence               111244444466777788888888887778888888888777767777778887776543    2223677777777


Q ss_pred             cCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHH
Q 044352          142 MGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAII  221 (544)
Q Consensus       142 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  221 (544)
                      ..+.||..++|+++.+..+.|+++.|..                           .|.+++.+|++.|+.|...+|..++
T Consensus       267 qkm~Pnl~TfNalL~c~akfg~F~~ar~---------------------------aalqil~EmKeiGVePsLsSyh~ii  319 (625)
T KOG4422|consen  267 QKMTPNLFTFNALLSCAAKFGKFEDARK---------------------------AALQILGEMKEIGVEPSLSSYHLII  319 (625)
T ss_pred             hhcCCchHhHHHHHHHHHHhcchHHHHH---------------------------HHHHHHHHHHHhCCCcchhhHHHHH
Confidence            7777888888888887777777766654                           3445566666666666666666666


Q ss_pred             HHHHhcCChHH-HHHHHHHhhh----CCCC----CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcC-----CCCC---H
Q 044352          222 ASYARRGDSNA-AFAFFSRMTA----EGFV----PDLVTWNAMISGFAQSKRENEALKLFKGMLVSG-----IKPN---N  284 (544)
Q Consensus       222 ~~~~~~~~~~~-a~~~~~~~~~----~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~---~  284 (544)
                      ..+.+.++..+ +..++.++..    ..+.    .|...|...+..|.+..+.+-|.++-.-+. .|     +.|+   .
T Consensus       320 k~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~-tg~N~~~ig~~~~~~  398 (625)
T KOG4422|consen  320 KNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLK-TGDNWKFIGPDQHRN  398 (625)
T ss_pred             HHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHH-cCCchhhcChHHHHH
Confidence            66666555533 2223322221    1111    123334444555555555555555443332 11     1222   1


Q ss_pred             HHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcC
Q 044352          285 VTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHG  364 (544)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g  364 (544)
                      .-|..+..+.+.....+.....|..+.-.-.-|+..+...++++..-.+.++-..+++..+..-+            +.-
T Consensus       399 fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~g------------ht~  466 (625)
T KOG4422|consen  399 FYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYG------------HTF  466 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhh------------hhh
Confidence            22344444455555555555555555555445555555555555555555555555554433211            111


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHH---HHHHHHHHHhcCCchHHHH-HHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 044352          365 MVDSSIELFERMLEEGMRANEV---TLISVLSACSHGGLVEKGL-EIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEA  440 (544)
Q Consensus       365 ~~~~A~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  440 (544)
                      +-+--++++..|......|+..   -+.....-|. . ++.++. ..-.++.+   ........+.++-.+.+.|..++|
T Consensus       467 r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~a-a-d~~e~~e~~~~R~r~---~~~~~t~l~~ia~Ll~R~G~~qkA  541 (625)
T KOG4422|consen  467 RSDLREEILMLLARDKLHPLTPEREQLQVAFAKCA-A-DIKEAYESQPIRQRA---QDWPATSLNCIAILLLRAGRTQKA  541 (625)
T ss_pred             hHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHH-H-HHHHHHHhhHHHHHh---ccCChhHHHHHHHHHHHcchHHHH
Confidence            1112223333333322223211   1111111111 0 111111 11122222   123334555666666677777777


Q ss_pred             HHHHHhC-------CCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC
Q 044352          441 YDLLRQV-------PMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG  483 (544)
Q Consensus       441 ~~~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  483 (544)
                      .+++.-.       +..|...+..-++......++...|...++-+...+
T Consensus       542 ~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n  591 (625)
T KOG4422|consen  542 WEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFN  591 (625)
T ss_pred             HHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Confidence            7666543       233333344455555566677777777777776555

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

Probab=99.78  E-value=8.1e-16  Score=137.10  Aligned_cols=405  Identities=12%  Similarity=0.018  Sum_probs=269.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcccccC-HHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHH
Q 044352           81 LNWMVMASAFTGNFQEAIGYFSLMREFIYRCN-KFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYS  159 (544)
Q Consensus        81 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  159 (544)
                      +.....-|.++|++++|++.|.+.++  ..|+ +..|.....+|...|+|+++.+-....++.+ |.-...+..-..++-
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~--l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~-P~Y~KAl~RRA~A~E  194 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIE--LCPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN-PDYVKALLRRASAHE  194 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHh--cCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC-cHHHHHHHHHHHHHH
Confidence            44456678889999999999999998  5677 7788888889999999999999988888764 334556777778888


Q ss_pred             hCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHH--------H-HHHcC--CCCCHhhHHHHHHHHHhcC
Q 044352          160 KCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFE--------R-MKLEG--LEPNQFTYNAIIASYARRG  228 (544)
Q Consensus       160 ~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~--------~-~~~~~--~~~~~~~~~~l~~~~~~~~  228 (544)
                      ..|++++|+.-..         ..++...+....-.--+.++++        + +.+.+  +-|+.....+....+... 
T Consensus       195 ~lg~~~eal~D~t---------v~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~-  264 (606)
T KOG0547|consen  195 QLGKFDEALFDVT---------VLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHAD-  264 (606)
T ss_pred             hhccHHHHHHhhh---------HHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccc-
Confidence            8899888865221         1122222221111111222222        1 11111  223333333332222110 


Q ss_pred             ChHHHHHHHHHhhhCCCCCCHhHHHHHHHHH----Hc-CCCHHHHHHHHHHHHHcC-CCC--C---------HHHHHHHH
Q 044352          229 DSNAAFAFFSRMTAEGFVPDLVTWNAMISGF----AQ-SKRENEALKLFKGMLVSG-IKP--N---------NVTVTGVL  291 (544)
Q Consensus       229 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~-~~~~~~a~~~~~~~~~~~-~~~--~---------~~~~~~l~  291 (544)
                       +.      ..+.    .+.......+..++    .. ...+..|.+.+.+-.... ..+  +         ..++....
T Consensus       265 -~~------~~~~----~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~g  333 (606)
T KOG0547|consen  265 -PK------PLFD----NKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRG  333 (606)
T ss_pred             -cc------cccc----CCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhh
Confidence             00      0000    00001111111111    11 112333333333221100 011  1         11122222


Q ss_pred             HHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHH
Q 044352          292 QAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDS  368 (544)
Q Consensus       292 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~  368 (544)
                      .-+.-.|+.-.+..-|+..+.....+ ...|..+..+|....+.++....|.....   .|+.+|..-.+.+.-.+++++
T Consensus       334 tF~fL~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  334 TFHFLKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             hhhhhcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHH
Confidence            22445678888888899888876443 33477777889999999999999987664   567789888888899999999


Q ss_pred             HHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhC
Q 044352          369 SIELFERMLEEGMRA-NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQV  447 (544)
Q Consensus       369 A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  447 (544)
                      |..-|++.+..  .| +...|..+..+..+.+.++++...|++.++  .+|..+++|+-....+..++++++|.+.|+.+
T Consensus       413 A~aDF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~a  488 (606)
T KOG0547|consen  413 AIADFQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKA  488 (606)
T ss_pred             HHHHHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHH
Confidence            99999999985  44 566788888888899999999999999988  57777889999999999999999999999986


Q ss_pred             C-CCCC---------hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          448 P-MYVT---------NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       448 ~-~~~~---------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      . ..|.         +....+++..- -.+++..|+.+++++++++|....++..|+......|+.++|+++|++...
T Consensus       489 i~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  489 IELEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HhhccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            3 2222         33333333333 348999999999999999999999999999999999999999999998653

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

Probab=99.78  E-value=2.3e-13  Score=121.25  Aligned_cols=468  Identities=10%  Similarity=0.006  Sum_probs=350.3

Q ss_pred             hHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhccccc
Q 044352           36 HALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRC  111 (544)
Q Consensus        36 ~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p  111 (544)
                      |+.-++. ..+.. .|...++.-...+++..|+.+|++..   ..+...|...+..-.++.....|..++++.+.  +-|
T Consensus        62 fEd~irrnR~~~~-~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt--~lP  138 (677)
T KOG1915|consen   62 FEDQIRRNRLNMQ-VWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVT--ILP  138 (677)
T ss_pred             HHHHHHHHHHHHH-HHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHH--hcc
Confidence            4444444 55666 77777777778899999999999987   56777888899999999999999999999987  445


Q ss_pred             CHH-HHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhc--cCCChhhHHHHHHH
Q 044352          112 NKF-TFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGM--FERDVVSWTSMISG  188 (544)
Q Consensus       112 ~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~--~~~~~~~~~~l~~~  188 (544)
                      .+. .|-..+..--..|+...|.++|+.-.+-  .|+...|.+.+..-.+.+.++.|..++++.  ..|++.+|--....
T Consensus       139 RVdqlWyKY~ymEE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarF  216 (677)
T KOG1915|consen  139 RVDQLWYKYIYMEEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARF  216 (677)
T ss_pred             hHHHHHHHHHHHHHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHH
Confidence            443 3444444445679999999999988765  799999999999999999999999999987  45999999999998


Q ss_pred             HhccCChhHHHHHHHHHHHc-CC-CCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCC---HhHHHHHHHHHHcCC
Q 044352          189 YCNVSKVDEAVVLFERMKLE-GL-EPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPD---LVTWNAMISGFAQSK  263 (544)
Q Consensus       189 ~~~~~~~~~a~~~~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~  263 (544)
                      -.++|+...+..+|+...+. |- ..+...+.+....-.++..++.|.-+|+-..+.  -|.   ...|..+...--+-|
T Consensus       217 E~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~--~pk~raeeL~k~~~~fEKqfG  294 (677)
T KOG1915|consen  217 EEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH--IPKGRAEELYKKYTAFEKQFG  294 (677)
T ss_pred             HHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCcccHHHHHHHHHHHHHHhc
Confidence            89999999999999887654 11 122334555555555678899999999888766  443   344544444444455


Q ss_pred             CHHHHHHH--------HHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCH-HHHHHHH-----HHH
Q 044352          264 RENEALKL--------FKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDV-FTGSALI-----DMY  329 (544)
Q Consensus       264 ~~~~a~~~--------~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~-----~~~  329 (544)
                      +.....+.        |++++..+ +.|-.++...+......|+.+...++++..+..-++.+. ..|...|     -++
T Consensus       295 d~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYal  373 (677)
T KOG1915|consen  295 DKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYAL  373 (677)
T ss_pred             chhhhHHHHhhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHH
Confidence            54443332        34444443 667788888888888899999999999998876433221 1121111     111


Q ss_pred             ---HhcCCHHHHHHHHHhcCC---ccHH----HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 044352          330 ---SKCGSLKDARTLFEITRI---KNVA----SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGG  399 (544)
Q Consensus       330 ---~~~~~~~~A~~~~~~~~~---~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  399 (544)
                         ....+.+.+.++++....   ....    .|........++.+...|.+++...+.  ..|-..+|...+..-.+.+
T Consensus       374 yeEle~ed~ertr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG--~cPK~KlFk~YIelElqL~  451 (677)
T KOG1915|consen  374 YEELEAEDVERTRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIG--KCPKDKLFKGYIELELQLR  451 (677)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhc--cCCchhHHHHHHHHHHHHh
Confidence               346788888888876553   2222    455555566678899999999998775  5899999999999999999


Q ss_pred             chHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCCh----hHHHHHHHHHhhcCChHHHHHH
Q 044352          400 LVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTN----SMAGAFRNGCNIHGRRDLAVTM  475 (544)
Q Consensus       400 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~  475 (544)
                      +++.+..++++..+  -.|-+..+|...+..-...|+.+.|..+|+-+...|..    ..|.+++..-...|.++.|..+
T Consensus       452 efDRcRkLYEkfle--~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~L  529 (677)
T KOG1915|consen  452 EFDRCRKLYEKFLE--FSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARAL  529 (677)
T ss_pred             hHHHHHHHHHHHHh--cChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHH
Confidence            99999999999987  34556778888888888999999999999988756643    3567777777789999999999


Q ss_pred             HHHHHHcCCCCchhHHHHHHHHH-----hcC-----------ChHHHHHHHHHHHhc
Q 044352          476 GEEFFEMGLRKPDGFVMLSNICA-----ADG-----------EWHEAENLRKIMKEK  516 (544)
Q Consensus       476 ~~~~~~~~p~~~~~~~~l~~~~~-----~~g-----------~~~~A~~~~~~~~~~  516 (544)
                      |+++++..+. ..+|...+..-.     ..|           ....|..+|+++...
T Consensus       530 YerlL~rt~h-~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~~  585 (677)
T KOG1915|consen  530 YERLLDRTQH-VKVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANTY  585 (677)
T ss_pred             HHHHHHhccc-chHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHHH
Confidence            9999998874 447776665444     344           667888888888654

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

Probab=99.76  E-value=3e-18  Score=155.12  Aligned_cols=257  Identities=16%  Similarity=0.083  Sum_probs=110.6

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 044352          255 MISGFAQSKRENEALKLFKGMLVSGIKPN-NVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCG  333 (544)
Q Consensus       255 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  333 (544)
                      +...+.+.|++++|++++++......+|+ ...+..+.......++++.|...++.+...+.. ++..+..++.. ...+
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-cccc
Confidence            35555566666666666644333221222 223333344445556666666666666555422 44555556655 5778


Q ss_pred             CHHHHHHHHHhcCC--ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhcCCchHHHHHHHHH
Q 044352          334 SLKDARTLFEITRI--KNVASWNAMIGCYGKHGMVDSSIELFERMLEEG-MRANEVTLISVLSACSHGGLVEKGLEIFRS  410 (544)
Q Consensus       334 ~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  410 (544)
                      ++++|.++++..-+  +++..+..++..+...++++++..+++.+.... .+++...|..+...+.+.|+.++|++.+++
T Consensus        92 ~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~  171 (280)
T PF13429_consen   92 DPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRK  171 (280)
T ss_dssp             --------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            88888877766543  455667777788888899999999988877542 345677788888888899999999999999


Q ss_pred             HHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch
Q 044352          411 MKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD  488 (544)
Q Consensus       411 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  488 (544)
                      ..+.  .|.+......++..+...|+.+++.++++...  .+.++..+..++.++...|++++|..+++++.+.+|+|+.
T Consensus       172 al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~  249 (280)
T PF13429_consen  172 ALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPL  249 (280)
T ss_dssp             HHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HH
T ss_pred             HHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccccc
Confidence            8874  34457788888889999999998877776653  2456677888999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          489 GFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       489 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      +...++.++...|+.++|.++++++.+
T Consensus       250 ~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  250 WLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccc
Confidence            999999999999999999999988764

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

Probab=99.74  E-value=2.4e-13  Score=120.84  Aligned_cols=361  Identities=13%  Similarity=0.084  Sum_probs=258.5

Q ss_pred             CCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhH--HHHH
Q 044352          144 FENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTY--NAII  221 (544)
Q Consensus       144 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~  221 (544)
                      ...|...+-...-.+.+.|....|+..|......-+..|.+.+....-..+.+.+..    +. .|.+.+....  -.+.
T Consensus       160 ~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~----l~-~~l~~~~h~M~~~F~~  234 (559)
T KOG1155|consen  160 GEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSI----LV-VGLPSDMHWMKKFFLK  234 (559)
T ss_pred             ccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHH----HH-hcCcccchHHHHHHHH
Confidence            355555555556667778889999998888876555555555443322233322222    21 1222222221  1234


Q ss_pred             HHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHhhccCc
Q 044352          222 ASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGI--KPNNVTVTGVLQAGGLTGS  299 (544)
Q Consensus       222 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~  299 (544)
                      .++-...+.+++..-.+.....|++.+...-+....+.....++|+|+.+|+++.++..  -.|..+|..++-+-.....
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk  314 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH
Confidence            55566668888888888888888777777667677778888999999999999997631  1145666666644322111


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCcc---HHHHHHHHHHHHhcCChHHHHHHHHHH
Q 044352          300 IQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKN---VASWNAMIGCYGKHGMVDSSIELFERM  376 (544)
Q Consensus       300 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~  376 (544)
                      ..   .+-......+ +--+.+...+.+-|.-.++.++|...|++..+-|   ...|+.+..-|...++...|++-++++
T Consensus       315 Ls---~LA~~v~~id-KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrA  390 (559)
T KOG1155|consen  315 LS---YLAQNVSNID-KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRA  390 (559)
T ss_pred             HH---HHHHHHHHhc-cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHH
Confidence            11   1111111111 2345677778888888999999999999888644   357899999999999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChh
Q 044352          377 LEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNS  454 (544)
Q Consensus       377 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~  454 (544)
                      ++- .+-|...|-.+.++|.-.+...=|+-+|++..+  --|.|+..|.+++.+|.+.++.++|+..|.++.  ...+..
T Consensus       391 vdi-~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~  467 (559)
T KOG1155|consen  391 VDI-NPRDYRAWYGLGQAYEIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGS  467 (559)
T ss_pred             Hhc-CchhHHHHhhhhHHHHHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchH
Confidence            985 244888999999999999999999999999876  456788999999999999999999999999875  334557


Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHHHHH-------cCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          455 MAGAFRNGCNIHGRRDLAVTMGEEFFE-------MGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      .+..++..|-+.++..+|...|++-++       .+|.-..+..-|+.-+.+.+++++|-.+..+....
T Consensus       468 ~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~  536 (559)
T KOG1155|consen  468 ALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG  536 (559)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC
Confidence            888999999999999999999999887       33444455666788888999999998877666554

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.70  E-value=5.2e-14  Score=133.30  Aligned_cols=288  Identities=10%  Similarity=-0.019  Sum_probs=151.6

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHhh-HHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHH--HHHHHHHcCCCHHHH
Q 044352          192 VSKVDEAVVLFERMKLEGLEPNQFT-YNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWN--AMISGFAQSKRENEA  268 (544)
Q Consensus       192 ~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a  268 (544)
                      .|+++.|.+.+....+..  +++.. |..........|+++.|...+.++.+.  .|+.....  .....+...|++++|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            466666666655544331  11222 222233335666666666666666554  44433222  224556666666666


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc
Q 044352          269 LKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK  348 (544)
Q Consensus       269 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  348 (544)
                      ...++++.+.. +-+......+...+...|+++.+..++..+.+.+..++...-....                      
T Consensus       173 l~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~----------------------  229 (398)
T PRK10747        173 RHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQ----------------------  229 (398)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHH----------------------
Confidence            66666666543 3334455555555556666666666666555554332111000000                      


Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 044352          349 NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVV  428 (544)
Q Consensus       349 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  428 (544)
                        ..|..++.......+.+...++++.+... .+.++.....+...+...|+.++|...+++..+.   +++....  ++
T Consensus       230 --~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l~--~l  301 (398)
T PRK10747        230 --QAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERLV--LL  301 (398)
T ss_pred             --HHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHH--HH
Confidence              01122222222223334444444444322 2335555556666666666666666666555542   3333222  12


Q ss_pred             HHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHH
Q 044352          429 DMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEA  506 (544)
Q Consensus       429 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  506 (544)
                      ......++.+++.+..++..  .+.++.....++..+...|++++|.+.|+++++.+|+ ...+..++.++.+.|+.++|
T Consensus       302 ~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~-~~~~~~La~~~~~~g~~~~A  380 (398)
T PRK10747        302 IPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPD-AYDYAWLADALDRLHKPEEA  380 (398)
T ss_pred             HhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHcCCHHHH
Confidence            22233466666666665542  2334455667777777777777777777777777774 44456777777777777777


Q ss_pred             HHHHHHHHh
Q 044352          507 ENLRKIMKE  515 (544)
Q Consensus       507 ~~~~~~~~~  515 (544)
                      .++|++.+.
T Consensus       381 ~~~~~~~l~  389 (398)
T PRK10747        381 AAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHh
Confidence            777776654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.70  E-value=2.5e-13  Score=128.71  Aligned_cols=287  Identities=10%  Similarity=-0.003  Sum_probs=212.3

Q ss_pred             hCCCHHHHHHHHhhccCC--Chh-hHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHH--HHHHHHHhcCChHHHH
Q 044352          160 KCGLLCSARRVFHGMFER--DVV-SWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYN--AIIASYARRGDSNAAF  234 (544)
Q Consensus       160 ~~~~~~~A~~~~~~~~~~--~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~  234 (544)
                      ..|+++.|++.+....+.  ++. .+.....+..+.|+++.|...+.++.+.  .|+.....  .....+...|+++.|.
T Consensus        96 ~eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             hCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            379999999999887553  233 3333345558899999999999999865  56654333  3467888999999999


Q ss_pred             HHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcC
Q 044352          235 AFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMG  314 (544)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  314 (544)
                      ..++++.+.. +.++.....+...|.+.|++++|.+++..+.+.+..++ .....+-                       
T Consensus       174 ~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~-~~~~~l~-----------------------  228 (398)
T PRK10747        174 HGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDE-EHRAMLE-----------------------  228 (398)
T ss_pred             HHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCH-HHHHHHH-----------------------
Confidence            9999998885 55778889999999999999999999999998764432 2111110                       


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 044352          315 LHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISV  391 (544)
Q Consensus       315 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  391 (544)
                          ..+|..++.......+.+...++++.+..   .++.....+...+...|+.++|..++++..+.  +|++...  +
T Consensus       229 ----~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~  300 (398)
T PRK10747        229 ----QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--L  300 (398)
T ss_pred             ----HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--H
Confidence                01222222222233445555666665543   46677788888889999999999999888873  5555322  2


Q ss_pred             HHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCChhHHHHHHHHHhhcCChH
Q 044352          392 LSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTNSMAGAFRNGCNIHGRRD  470 (544)
Q Consensus       392 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~  470 (544)
                      +.+....++.+++.+..+...+  ..+.|+..+..++..+.+.|++++|.+.|+.+. ..|+...+..+..++.+.|+.+
T Consensus       301 l~~~l~~~~~~~al~~~e~~lk--~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~  378 (398)
T PRK10747        301 LIPRLKTNNPEQLEKVLRQQIK--QHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPE  378 (398)
T ss_pred             HHhhccCCChHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHH
Confidence            3344456888999999988877  456667778888999999999999999998874 6688888888888999999999


Q ss_pred             HHHHHHHHHHHcC
Q 044352          471 LAVTMGEEFFEMG  483 (544)
Q Consensus       471 ~A~~~~~~~~~~~  483 (544)
                      +|..+|++.+.+-
T Consensus       379 ~A~~~~~~~l~~~  391 (398)
T PRK10747        379 EAAAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHHHhhh
Confidence            9999999987754

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

Probab=99.69  E-value=3.3e-13  Score=119.98  Aligned_cols=327  Identities=9%  Similarity=-0.032  Sum_probs=244.9

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHH--HH
Q 044352          177 RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTW--NA  254 (544)
Q Consensus       177 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~  254 (544)
                      .|...+......+-+.|..+.|.+.|......- +-.-..|..|....   .+.+.+..    +... .+.|...+  -.
T Consensus       162 ~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~-P~~W~AWleL~~li---t~~e~~~~----l~~~-l~~~~h~M~~~F  232 (559)
T KOG1155|consen  162 KDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRY-PWFWSAWLELSELI---TDIEILSI----LVVG-LPSDMHWMKKFF  232 (559)
T ss_pred             chhHHHHHHHHHHHhhchHHHHHHHHHHHHhcC-CcchHHHHHHHHhh---chHHHHHH----HHhc-CcccchHHHHHH
Confidence            455555555566777899999999988876431 33334444443333   23322222    2211 12221111  12


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHhc
Q 044352          255 MISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLH--IDVFTGSALIDMYSKC  332 (544)
Q Consensus       255 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~  332 (544)
                      +..++....+.+++..-.......|.+.+...-+....+.....|++.|+.+|+.+.+..+-  .|..+|+.++-.-...
T Consensus       233 ~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~  312 (559)
T KOG1155|consen  233 LKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDK  312 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhh
Confidence            34566666688888888888888887777777777777788899999999999999988421  2667777776433332


Q ss_pred             CCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHH
Q 044352          333 GSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMK  412 (544)
Q Consensus       333 ~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  412 (544)
                      .++.---...-.+.+-.+.+...+..-|.-.++.++|...|++.++.+ +.....|+.+.+-|...++...|++-++.+.
T Consensus       313 skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAv  391 (559)
T KOG1155|consen  313 SKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAV  391 (559)
T ss_pred             HHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHH
Confidence            222221222223444456677778888888999999999999999963 3355678888889999999999999999998


Q ss_pred             HHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhH
Q 044352          413 ERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGF  490 (544)
Q Consensus       413 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  490 (544)
                      +  -.|.|-..|..++.+|.-.+...=|+-+|+++.  .+.|+..|.+++.+|.+.++.++|++.|.+++..+..+..++
T Consensus       392 d--i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l  469 (559)
T KOG1155|consen  392 D--INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSAL  469 (559)
T ss_pred             h--cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHH
Confidence            7  457788999999999999999999999999984  566889999999999999999999999999999998889999


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          491 VMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       491 ~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      ..|+.+|.+.++.++|..+|++.++
T Consensus       470 ~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  470 VRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            9999999999999999999999886

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

Probab=99.68  E-value=4.4e-13  Score=122.23  Aligned_cols=471  Identities=10%  Similarity=-0.034  Sum_probs=306.5

Q ss_pred             CcchHHHHHHHhhccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCC-CCCchhHHHHHHHHHh
Q 044352           12 SVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP-NPNVFMLNWMVMASAF   90 (544)
Q Consensus        12 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~l~~~~~~   90 (544)
                      +|..-+-+++++.-.|+++.|..+...-.-...+.. .....+.++.+..++++|..++.... ..++..|..-=.  ..
T Consensus        48 dp~d~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~-cryL~~~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~--~~  124 (611)
T KOG1173|consen   48 DPADIYWLAQVLYLGRQYERAAHLITTYKLEKRDIA-CRYLAAKCLVKLKEWDQALLVLGRGHVETNPFSYYEKDA--AN  124 (611)
T ss_pred             ChHHHHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHH-HHHHHHHHHHHHHHHHHHHHHhcccchhhcchhhcchhh--hc
Confidence            455677889999999999998877766533366777 78888889999999999999999543 111111111000  00


Q ss_pred             cCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHH
Q 044352           91 TGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRV  170 (544)
Q Consensus        91 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  170 (544)
                      .-..+.+.    ++..  +......+-.-.+.|....+.++|...+.+..... ......+..++....-  ...+-..+
T Consensus       125 ~l~~n~~~----~~~~--~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~D-~~c~Ea~~~lvs~~ml--t~~Ee~~l  195 (611)
T KOG1173|consen  125 TLELNSAG----EDLM--INLESSICYLRGKVYVALDNREEARDKYKEALLAD-AKCFEAFEKLVSAHML--TAQEEFEL  195 (611)
T ss_pred             eeccCccc----cccc--ccchhceeeeeeehhhhhccHHHHHHHHHHHHhcc-hhhHHHHHHHHHHHhc--chhHHHHH
Confidence            00000010    0100  11111111122233445556666666666655432 1112222222222211  11122233


Q ss_pred             Hhhc-----cCCChhhHHHHHHHH-hccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044352          171 FHGM-----FERDVVSWTSMISGY-CNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEG  244 (544)
Q Consensus       171 ~~~~-----~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  244 (544)
                      |+.+     ...+......+.... ++..+ +.....-.+..-.+..-+.........-+...+++.+..++++.+.+..
T Consensus       196 l~~l~~a~~~~ed~e~l~~lyel~~~k~~n-~~~~~r~~~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d  274 (611)
T KOG1173|consen  196 LESLDLAMLTKEDVERLEILYELKLCKNRN-EESLTRNEDESLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLEKD  274 (611)
T ss_pred             HhcccHHhhhhhHHHHHHHHHHhhhhhhcc-ccccccCchhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC
Confidence            3321     111222111111111 01000 0000000001111234455555666677778899999999999988765


Q ss_pred             CCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHH
Q 044352          245 FVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSA  324 (544)
Q Consensus       245 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  324 (544)
                       ++....+..-|.++...|+..+-..+=.++.+.- +....+|..+.--|...|..++|++.|.+....+.. -...|..
T Consensus       275 -pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~  351 (611)
T KOG1173|consen  275 -PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLA  351 (611)
T ss_pred             -CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHH
Confidence             6677777777789999999988888888888653 556778888888888899999999999998876533 3557888


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCch
Q 044352          325 LIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLV  401 (544)
Q Consensus       325 l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  401 (544)
                      ....|.-.|..++|...+....+   .....+--+..-|.+.++.+.|.++|.+...- .+.|+..++-+.-.....+.+
T Consensus       352 fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y  430 (611)
T KOG1173|consen  352 FGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEY  430 (611)
T ss_pred             HhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhh
Confidence            99999999999999988865543   22222333444678889999999999998884 344777888887777788999


Q ss_pred             HHHHHHHHHHHHHhC-----CCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHH
Q 044352          402 EKGLEIFRSMKERYG-----VKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVT  474 (544)
Q Consensus       402 ~~a~~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~  474 (544)
                      .+|..+|+.....-.     .+....+++.|+.+|.+.+++++|+..+++..  .+.+..++.+++-.|...|+++.|+.
T Consensus       431 ~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid  510 (611)
T KOG1173|consen  431 PEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAID  510 (611)
T ss_pred             HHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHH
Confidence            999999998873210     11234578899999999999999999999874  67788999999999999999999999


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHh
Q 044352          475 MGEEFFEMGLRKPDGFVMLSNICAA  499 (544)
Q Consensus       475 ~~~~~~~~~p~~~~~~~~l~~~~~~  499 (544)
                      .|.+++.+.|+|..+-..|..+...
T Consensus       511 ~fhKaL~l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  511 HFHKALALKPDNIFISELLKLAIED  535 (611)
T ss_pred             HHHHHHhcCCccHHHHHHHHHHHHh
Confidence            9999999999998877777766554

>TIGR00540 hemY_coli hemY protein

Probab=99.68  E-value=5.6e-13  Score=127.04  Aligned_cols=284  Identities=13%  Similarity=-0.000  Sum_probs=136.0

Q ss_pred             ccCChhHHHHHHHHHHHcCCCCCH-hhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHh--HHHHHHHHHHcCCCHHH
Q 044352          191 NVSKVDEAVVLFERMKLEGLEPNQ-FTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLV--TWNAMISGFAQSKRENE  267 (544)
Q Consensus       191 ~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~  267 (544)
                      ..|+++.|.+.+.+..+.  .|+. ..+-.....+...|+++.|.+++.+..+.  .|+..  ........+...|+++.
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~  171 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHA  171 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHH
Confidence            356666666666555443  2332 22233345555566666666666665543  23322  22223555566666666


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH---H----hcCCHHHHHH
Q 044352          268 ALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMY---S----KCGSLKDART  340 (544)
Q Consensus       268 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~----~~~~~~~A~~  340 (544)
                      |...++.+.+.. +-+..+...+...+...|+++.+.+.+..+.+.+..++......-..++   .    .....+....
T Consensus       172 Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~  250 (409)
T TIGR00540       172 ARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLN  250 (409)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            666666666543 2244455555566666666666666666666554332221111111111   1    1112233333


Q ss_pred             HHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH---HHHHHHHhcCCchHHHHHHHHHHHHH
Q 044352          341 LFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTL---ISVLSACSHGGLVEKGLEIFRSMKER  414 (544)
Q Consensus       341 ~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~  414 (544)
                      .++....   .++..+..++..+...|++++|.+++++..+.  .|+....   ..........++.+.+.+.+++..+.
T Consensus       251 ~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~  328 (409)
T TIGR00540       251 WWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN  328 (409)
T ss_pred             HHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh
Confidence            4444432   25555666666666666666666666666664  2322210   11111112234444444444444432


Q ss_pred             hCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHH--HHHHcCCCCchhHHH
Q 044352          415 YGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGE--EFFEMGLRKPDGFVM  492 (544)
Q Consensus       415 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~--~~~~~~p~~~~~~~~  492 (544)
                        .+.++                              +.....+++..+.+.|++++|.+.|+  .+.+..|+ +..+..
T Consensus       329 --~p~~~------------------------------~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~-~~~~~~  375 (409)
T TIGR00540       329 --VDDKP------------------------------KCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLD-ANDLAM  375 (409)
T ss_pred             --CCCCh------------------------------hHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCC-HHHHHH
Confidence              11122                              11334455555555666666666666  34444453 333445


Q ss_pred             HHHHHHhcCChHHHHHHHHHHH
Q 044352          493 LSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       493 l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      ++.++.+.|+.++|.++|++.+
T Consensus       376 La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       376 AADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            6666666666666666665543

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

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

Probab=99.66  E-value=6.1e-16  Score=140.08  Aligned_cols=256  Identities=15%  Similarity=0.164  Sum_probs=109.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhCC-CCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhcc
Q 044352          219 AIIASYARRGDSNAAFAFFSRMTAEG-FVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLT  297 (544)
Q Consensus       219 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  297 (544)
                      .+...+.+.|++++|+++++...... .+.+...|..+.......++++.|...|+++...+ +.+...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            44667777888888888885544332 13345556666667777888888888888887654 2244555566665 677


Q ss_pred             CchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcC-----CccHHHHHHHHHHHHhcCChHHHHHH
Q 044352          298 GSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITR-----IKNVASWNAMIGCYGKHGMVDSSIEL  372 (544)
Q Consensus       298 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~  372 (544)
                      +++++|..++....+..  +++..+..++..+...++++++..+++.+.     ..+...|..+...+.+.|+.++|++.
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            88888887777665543  455666777888888899999888887744     24667888889999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CC
Q 044352          373 FERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MY  450 (544)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~  450 (544)
                      +++.++.. +.|......++..+...|+.+++.+++....+.  .+.++..+..++.+|...|++++|..+|++..  .+
T Consensus       169 ~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~--~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p  245 (280)
T PF13429_consen  169 YRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKA--APDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNP  245 (280)
T ss_dssp             HHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHH--CcCHHHHHHHHHHHhccccccccccccccccccccc
Confidence            99999962 346778888999999999999999999998775  36677788899999999999999999999874  45


Q ss_pred             CChhHHHHHHHHHhhcCChHHHHHHHHHHHH
Q 044352          451 VTNSMAGAFRNGCNIHGRRDLAVTMGEEFFE  481 (544)
Q Consensus       451 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  481 (544)
                      .|+.....++.++...|+.++|..+.+++++
T Consensus       246 ~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  246 DDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             T-HHHHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccccccc
Confidence            6788889999999999999999999998875

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

Probab=99.66  E-value=9.9e-13  Score=117.77  Aligned_cols=218  Identities=10%  Similarity=-0.059  Sum_probs=166.2

Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 044352          260 AQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDAR  339 (544)
Q Consensus       260 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  339 (544)
                      .-.|+.-.|..-|+..+.....++ ..|..+...|....+.++....|....+.+ +.++.+|..-.+++.-.+++++|.
T Consensus       337 fL~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~  414 (606)
T KOG0547|consen  337 FLKGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAI  414 (606)
T ss_pred             hhcCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHH
Confidence            346777888888888886543332 226667777888888888888888888876 346777888888888889999999


Q ss_pred             HHHHhcCCc---cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhC
Q 044352          340 TLFEITRIK---NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYG  416 (544)
Q Consensus       340 ~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  416 (544)
                      .=|++...-   +...|-.+..+..+.+++++++..|++.+.. ++..+..|+.....+...++++.|.+.|+..++.  
T Consensus       415 aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L--  491 (606)
T KOG0547|consen  415 ADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL--  491 (606)
T ss_pred             HHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh--
Confidence            999887764   3445666666667788999999999999887 6777889999999999999999999999998763  


Q ss_pred             CCCc---------hhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCC
Q 044352          417 VKIS---------KEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGL  484 (544)
Q Consensus       417 ~~~~---------~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  484 (544)
                       .|+         +.+...++..- -.+++..|.++++++.  .+....++..++..-.+.|+.++|+++|++...+-.
T Consensus       492 -E~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~lAr  568 (606)
T KOG0547|consen  492 -EPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQLAR  568 (606)
T ss_pred             -ccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence             332         12222222222 2388999999999875  344556788888899999999999999999887653

>TIGR00540 hemY_coli hemY protein

Probab=99.66  E-value=6.6e-13  Score=126.55  Aligned_cols=213  Identities=10%  Similarity=-0.028  Sum_probs=134.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH---HhcC
Q 044352          325 LIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSA---CSHG  398 (544)
Q Consensus       325 l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~  398 (544)
                      ....+...|+++.|...++.+.+   .++..+..+...+...|++++|.+.+..+.+.+..+.......-..+   ....
T Consensus       159 ~a~l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~  238 (409)
T TIGR00540       159 RTRILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDE  238 (409)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHH
Confidence            35555666666666666665553   24455666666777777777777777777776533222211111111   1222


Q ss_pred             CchHHHHHHHHHHHHHh--CCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCChhH---HHHHHHHHhhcCChHHH
Q 044352          399 GLVEKGLEIFRSMKERY--GVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTNSM---AGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       399 ~~~~~a~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~---~~~l~~~~~~~g~~~~A  472 (544)
                      +..+.+.+.+..+.+..  ..+.+...+..++..+...|+.++|.+++++.. ..|+...   ...........++.+.+
T Consensus       239 ~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~  318 (409)
T TIGR00540       239 AMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKL  318 (409)
T ss_pred             HHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHH
Confidence            33333334444444420  112367788888888888899999888888764 3444432   11122233456888999


Q ss_pred             HHHHHHHHHcCCCCc--hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCceEEEecC-eeecccc
Q 044352          473 VTMGEEFFEMGLRKP--DGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRN-EFVEKEV  538 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~  538 (544)
                      .+.+++.++..|+|+  .....+|+++.+.|+|++|.++|++.......|++.... .++. +...|+.
T Consensus       319 ~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~-~La~ll~~~g~~  386 (409)
T TIGR00540       319 EKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLA-MAADAFDQAGDK  386 (409)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHH-HHHHHHHHcCCH
Confidence            999999999999999  899999999999999999999999644444455665533 4444 6666664

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.

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

Probab=99.65  E-value=2e-11  Score=115.75  Aligned_cols=382  Identities=10%  Similarity=0.049  Sum_probs=258.6

Q ss_pred             CCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHh-hHH
Q 044352          143 GFENDVSVGNALIDMYSKCGLLCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQF-TYN  218 (544)
Q Consensus       143 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~  218 (544)
                      .+..+..+|..+.-+....|+++.+-+.|++...   .....|+.+...+...|.-..|..+++.-......|+.. .+-
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            3456788888888888899999999999988765   455678888888888888888888887765442224333 333


Q ss_pred             HHHHHHH-hcCChHHHHHHHHHhhhC--CC--CCCHhHHHHHHHHHHc----CC-------CHHHHHHHHHHHHHcCCCC
Q 044352          219 AIIASYA-RRGDSNAAFAFFSRMTAE--GF--VPDLVTWNAMISGFAQ----SK-------RENEALKLFKGMLVSGIKP  282 (544)
Q Consensus       219 ~l~~~~~-~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~~----~~-------~~~~a~~~~~~~~~~~~~~  282 (544)
                      ..-..|. +.+.+++++++-.++.+.  +.  ...+..|..+.-+|..    ..       ...++++.+++..+.+ +.
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d-~~  476 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD-PT  476 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC-CC
Confidence            3333333 456777777776666552  10  1223444444444432    11       2346777777777654 33


Q ss_pred             CHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc--------------
Q 044352          283 NNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK--------------  348 (544)
Q Consensus       283 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------------  348 (544)
                      |+.....+.--++-.++.+.|....++..+.+...+...|..+.-.+...+++.+|+.+.+.....              
T Consensus       477 dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i  556 (799)
T KOG4162|consen  477 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHI  556 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhh
Confidence            444444455556777888889888888888866778888888888888888888888887644321              


Q ss_pred             -----c----HHHHHHHHHHHH-----------------------hcCChHHHHHHHHHHHH--------cC--------
Q 044352          349 -----N----VASWNAMIGCYG-----------------------KHGMVDSSIELFERMLE--------EG--------  380 (544)
Q Consensus       349 -----~----~~~~~~l~~~~~-----------------------~~g~~~~A~~~~~~~~~--------~~--------  380 (544)
                           +    ..+...++..+-                       ..++..++.+....+..        .|        
T Consensus       557 ~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s  636 (799)
T KOG4162|consen  557 ELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSS  636 (799)
T ss_pred             hhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcc
Confidence                 0    112222221111                       01122222222222110        11        


Q ss_pred             -CCCCH--------HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--C
Q 044352          381 -MRANE--------VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--M  449 (544)
Q Consensus       381 -~~~~~--------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~  449 (544)
                       +.|.+        ..+......+.+.+..++|...+.+...  ..+.....|...+..+...|+..+|.+.|....  .
T Consensus       637 ~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld  714 (799)
T KOG4162|consen  637 TVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD  714 (799)
T ss_pred             cccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC
Confidence             11111        2344555667788888999988888876  556677888888899999999999999998764  4


Q ss_pred             CCChhHHHHHHHHHhhcCChHHHHH--HHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCceEE
Q 044352          450 YVTNSMAGAFRNGCNIHGRRDLAVT--MGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRV  527 (544)
Q Consensus       450 ~~~~~~~~~l~~~~~~~g~~~~A~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  527 (544)
                      +.++.+..+++..+.+.|+..-|..  ++..+++++|.|+.+|..+|.++.+.|+.+.|.+.|.-+.+... ..|..+|.
T Consensus       715 P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~-S~PV~pFs  793 (799)
T KOG4162|consen  715 PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEE-SNPVLPFS  793 (799)
T ss_pred             CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhcc-CCCccccc
Confidence            5567889999999999998888887  99999999999999999999999999999999999999987542 34444444


Q ss_pred             E
Q 044352          528 E  528 (544)
Q Consensus       528 ~  528 (544)
                      .
T Consensus       794 ~  794 (799)
T KOG4162|consen  794 N  794 (799)
T ss_pred             c
Confidence            3

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

Probab=99.64  E-value=4.4e-14  Score=131.41  Aligned_cols=281  Identities=11%  Similarity=-0.056  Sum_probs=220.9

Q ss_pred             CChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHhhccCchHHHHH
Q 044352          228 GDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSG--IKPNNVTVTGVLQAGGLTGSIQIGRE  305 (544)
Q Consensus       228 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~  305 (544)
                      -+..+|...|..+..+- .-+......+..+|...+++++|.++|+.+.+..  ..-+..+|...+..+..    +-+..
T Consensus       333 y~~~~A~~~~~klp~h~-~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls  407 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSHH-YNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALS  407 (638)
T ss_pred             HHHHHHHHHHHhhHHhc-CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHH
Confidence            35678899998866552 2233555667889999999999999999998642  11245566666654322    12222


Q ss_pred             HH-HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccH---HHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 044352          306 IH-ALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNV---ASWNAMIGCYGKHGMVDSSIELFERMLEEGM  381 (544)
Q Consensus       306 ~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  381 (544)
                      .+ +.+.+.. +..+.+|.++..+|.-+++.+.|++.|++..+-|+   .+|+.+..-+.....++.|...|+..+..  
T Consensus       408 ~Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~--  484 (638)
T KOG1126|consen  408 YLAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV--  484 (638)
T ss_pred             HHHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC--
Confidence            22 2333333 55789999999999999999999999999887544   57788888888899999999999998763  


Q ss_pred             CC-CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHH
Q 044352          382 RA-NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGA  458 (544)
Q Consensus       382 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~  458 (544)
                      .| +...|--+...|.+.++++.|+-.|+++.+  --|.+......++..+.+.|+.++|+++++++.  .+.++.....
T Consensus       485 ~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~--INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~  562 (638)
T KOG1126|consen  485 DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE--INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYH  562 (638)
T ss_pred             CchhhHHHHhhhhheeccchhhHHHHHHHhhhc--CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHH
Confidence            33 445677788889999999999999999986  234456667778888999999999999999974  5667777777


Q ss_pred             HHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 044352          459 FRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNV  518 (544)
Q Consensus       459 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  518 (544)
                      .+..+...+++++|...+|++.++-|++..++..++.+|.+.|+.+.|+.-|--+.+...
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDP  622 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCC
Confidence            888899999999999999999999999999999999999999999999999888776543

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

Probab=99.64  E-value=8e-14  Score=129.69  Aligned_cols=286  Identities=13%  Similarity=0.090  Sum_probs=226.3

Q ss_pred             CChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCC--CCCCHhHHHHHHHHHHcCCCHHHHHH
Q 044352          193 SKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEG--FVPDLVTWNAMISGFAQSKRENEALK  270 (544)
Q Consensus       193 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~  270 (544)
                      -+..+|...|.++... +.-+......+..+|...+++++|.++|+.+.+..  ...+...|.+.+..+-+    +-++.
T Consensus       333 y~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls  407 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALS  407 (638)
T ss_pred             HHHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHH
Confidence            3567888888886554 23334556778899999999999999999998762  12356778777765422    22333


Q ss_pred             HH-HHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCcc
Q 044352          271 LF-KGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKN  349 (544)
Q Consensus       271 ~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  349 (544)
                      .+ +.+++.. +..+.+|..+..+|..+++.+.|++.|++..+.+ +....+|..+..-+....++|.|...|+.....+
T Consensus       408 ~Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~  485 (638)
T KOG1126|consen  408 YLAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD  485 (638)
T ss_pred             HHHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC
Confidence            33 3333332 5567899999999999999999999999999875 2367889999999999999999999999998876


Q ss_pred             HH---HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHH
Q 044352          350 VA---SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYAC  426 (544)
Q Consensus       350 ~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  426 (544)
                      +.   +|..+...|.+.++++.|+-.|+++.+-+ +-+......+...+.+.|+.++|+++++++...  -+.|+..-..
T Consensus       486 ~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~l--d~kn~l~~~~  562 (638)
T KOG1126|consen  486 PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHL--DPKNPLCKYH  562 (638)
T ss_pred             chhhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhc--CCCCchhHHH
Confidence            65   56667888999999999999999999842 336667777888889999999999999999763  3445556666


Q ss_pred             HHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch
Q 044352          427 VVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD  488 (544)
Q Consensus       427 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  488 (544)
                      -+..+...+++++|+..++++.  .+.+...+..++..|.+.|+.+.|+..|-=|..++|+-..
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~~  626 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGAQ  626 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccch
Confidence            7788889999999999999985  4555667888889999999999999999999999996443

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

Probab=99.62  E-value=2.2e-10  Score=106.46  Aligned_cols=484  Identities=13%  Similarity=0.092  Sum_probs=275.7

Q ss_pred             cchHHHHHHHhhccchhhhhhHHhHHHhhc---ccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHH
Q 044352           13 VNYLDCLLGKCMKSKALRQGKQVHALLCTN---DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASA   89 (544)
Q Consensus        13 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~   89 (544)
                      |..+...++.+.++|++..-...|+.++..   ..... +|...+......|-++.++.++.+..+.++..-+-.|..++
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~r-IW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~  180 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDR-IWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLA  180 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhcc-chHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            345666667777888888888888888887   33345 77777777777888888888888888777777888888888


Q ss_pred             hcCCHHHHHHHHHHHHhcc------cccCHHHHHHHHHHhhCCCChH---HHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 044352           90 FTGNFQEAIGYFSLMREFI------YRCNKFTFSIVLKACVGLLDIK---KGKQVHAVATQMGFENDVSVGNALIDMYSK  160 (544)
Q Consensus        90 ~~~~~~~A~~~~~~~~~~~------~~p~~~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  160 (544)
                      ..+++++|.+.+...+...      .+.+...|..+-...++..+.-   ....++..+...-...-...|.+|...|.+
T Consensus       181 ~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr  260 (835)
T KOG2047|consen  181 KSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIR  260 (835)
T ss_pred             hccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHH
Confidence            8888888888887765431      1223334444444444333222   223333333332111113567888888888


Q ss_pred             CCCHHHHHHHHhhccCC--ChhhHHHHHHHH-------------------------------------------------
Q 044352          161 CGLLCSARRVFHGMFER--DVVSWTSMISGY-------------------------------------------------  189 (544)
Q Consensus       161 ~~~~~~A~~~~~~~~~~--~~~~~~~l~~~~-------------------------------------------------  189 (544)
                      .|.+++|..++++....  .+.-|..+.++|                                                 
T Consensus       261 ~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsV  340 (835)
T KOG2047|consen  261 SGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSV  340 (835)
T ss_pred             hhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHH
Confidence            88888888888776331  111111111111                                                 


Q ss_pred             -----------------hccCChhHHHHHHHHHHHcCCCCC------HhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCC
Q 044352          190 -----------------CNVSKVDEAVVLFERMKLEGLEPN------QFTYNAIIASYARRGDSNAAFAFFSRMTAEGFV  246 (544)
Q Consensus       190 -----------------~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  246 (544)
                                       +..|+..+....|.+.... +.|.      ...|..+...|-..|+++.|..+|++..+...+
T Consensus       341 lLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~  419 (835)
T KOG2047|consen  341 LLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYK  419 (835)
T ss_pred             HHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCcc
Confidence                             0112233333333333221 1111      123466677777888888888888887755422


Q ss_pred             CC---HhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCC----------C-------CHHHHHHHHHHhhccCchHHHHHH
Q 044352          247 PD---LVTWNAMISGFAQSKRENEALKLFKGMLVSGIK----------P-------NNVTVTGVLQAGGLTGSIQIGREI  306 (544)
Q Consensus       247 ~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------~-------~~~~~~~l~~~~~~~~~~~~a~~~  306 (544)
                      .-   ..+|..-...-.+..+++.|++++++.....-.          |       +...|...+...-..|-++....+
T Consensus       420 ~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~v  499 (835)
T KOG2047|consen  420 TVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAV  499 (835)
T ss_pred             chHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHH
Confidence            21   234555555556677888888887776532111          1       122234444444556677777888


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC----ccHH-HHHHHHHHHHh---cCChHHHHHHHHHHHH
Q 044352          307 HALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI----KNVA-SWNAMIGCYGK---HGMVDSSIELFERMLE  378 (544)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~-~~~~l~~~~~~---~g~~~~A~~~~~~~~~  378 (544)
                      ++.+.+..+. ++.+.......+..+.-++++.+++++...    |++. .|+..+.-+.+   .-..+.|..+|++.++
T Consensus       500 YdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~  578 (835)
T KOG2047|consen  500 YDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD  578 (835)
T ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh
Confidence            8888877643 444444444455666778888888887664    4443 67777766654   2367889999999888


Q ss_pred             cCCCCCHHHHHHHH--HHHhcCCchHHHHHHHHHHHHHhCCCCc--hhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCCh
Q 044352          379 EGMRANEVTLISVL--SACSHGGLVEKGLEIFRSMKERYGVKIS--KEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTN  453 (544)
Q Consensus       379 ~~~~~~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~  453 (544)
                       |.+|...-+..++  ..-.+.|....|+.+++++..  ++++.  ...|+..+.--...=-...-..+|+++. .-|+.
T Consensus       579 -~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~--~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~  655 (835)
T KOG2047|consen  579 -GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS--AVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDS  655 (835)
T ss_pred             -cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChH
Confidence             5666543222222  223346777888888888755  33332  2344444432222111222223333321 11222


Q ss_pred             h---HHHHHHHHHhhcCChHHHHHHHHHHHHcCCC--CchhHHHHHHHHHhcCC
Q 044352          454 S---MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR--KPDGFVMLSNICAADGE  502 (544)
Q Consensus       454 ~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~  502 (544)
                      .   .....+..-.+.|..+.|+.+|...-++-++  ++..|...=..-.+-|+
T Consensus       656 ~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGn  709 (835)
T KOG2047|consen  656 KAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGN  709 (835)
T ss_pred             HHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCC
Confidence            2   2222333445667777777777766665432  33445555555555565

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.62  E-value=9.6e-12  Score=107.02  Aligned_cols=443  Identities=11%  Similarity=0.072  Sum_probs=272.1

Q ss_pred             HHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHH
Q 044352           20 LGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQ   95 (544)
Q Consensus        20 ~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~   95 (544)
                      +.-+...+|++.|+.+++..... ......+-.-++.++.+.|++++|...+..+.   .++...+..+.-.+.-.|.+.
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~  108 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYI  108 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHH
Confidence            34445678999999999888766 22222144556667778899999999988776   455666777777777788888


Q ss_pred             HHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhcc
Q 044352           96 EAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMF  175 (544)
Q Consensus        96 ~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  175 (544)
                      +|..+-.+..+     ++..-..++....+.++-++-....+.+...     ..-..+|....-..-.+.+|++++.++.
T Consensus       109 eA~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL  178 (557)
T KOG3785|consen  109 EAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVL  178 (557)
T ss_pred             HHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            88887766643     3444455566667788877777776665432     2333345555445567889999999887


Q ss_pred             CCCh--hhHHHHH-HHHhccCChhHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhH
Q 044352          176 ERDV--VSWTSMI-SGYCNVSKVDEAVVLFERMKLEGLEPN-QFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVT  251 (544)
Q Consensus       176 ~~~~--~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  251 (544)
                      ..+.  ...|..+ -+|.+..-++-+.+++.-..+.  .|| +...|.......+.-+-..|.+-.+.+...+-..    
T Consensus       179 ~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q--~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~----  252 (557)
T KOG3785|consen  179 QDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ--FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE----  252 (557)
T ss_pred             hcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh--CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc----
Confidence            6443  3445433 4566777777777777776654  444 3444544444444333333333344443332111    


Q ss_pred             HHHHHHHHHc-----CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 044352          252 WNAMISGFAQ-----SKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALI  326 (544)
Q Consensus       252 ~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  326 (544)
                      |. .+.-+++     -.+-+.|++++-.+.+.  -|  ..-..++--|.+.+++.+|..+.+.+.    +.++.-|..-.
T Consensus       253 ~~-f~~~l~rHNLVvFrngEgALqVLP~L~~~--IP--EARlNL~iYyL~q~dVqeA~~L~Kdl~----PttP~EyilKg  323 (557)
T KOG3785|consen  253 YP-FIEYLCRHNLVVFRNGEGALQVLPSLMKH--IP--EARLNLIIYYLNQNDVQEAISLCKDLD----PTTPYEYILKG  323 (557)
T ss_pred             ch-hHHHHHHcCeEEEeCCccHHHhchHHHhh--Ch--HhhhhheeeecccccHHHHHHHHhhcC----CCChHHHHHHH
Confidence            11 1222222     23345677776665532  23  233345556778888888887766543    22333333222


Q ss_pred             HHHHhcCC-------HHHHHHHHHhcCCc-----cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044352          327 DMYSKCGS-------LKDARTLFEITRIK-----NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSA  394 (544)
Q Consensus       327 ~~~~~~~~-------~~~A~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  394 (544)
                      -.+...|+       ..-|.+.|+-.-..     ...--.++...+.-..++++++..+...... +..|......+..+
T Consensus       324 vv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn~N~AQA  402 (557)
T KOG3785|consen  324 VVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFNLNLAQA  402 (557)
T ss_pred             HHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhhhHHHHH
Confidence            23333332       34455666543321     1122344555566667788888888887775 34444445557888


Q ss_pred             HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChh-HHHHHHHHHhhcCChHHHH
Q 044352          395 CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNS-MAGAFRNGCNIHGRRDLAV  473 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~  473 (544)
                      .+..|++.+|.++|-.+... .+..+..-...+.++|.+.++++-|++++-++..+.+.. ....+++.|.+.+.+--|-
T Consensus       403 k~atgny~eaEelf~~is~~-~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaa  481 (557)
T KOG3785|consen  403 KLATGNYVEAEELFIRISGP-EIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAA  481 (557)
T ss_pred             HHHhcChHHHHHHHhhhcCh-hhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHH
Confidence            88999999999999887542 333333334567788999999999999988876444443 3445556788899998899


Q ss_pred             HHHHHHHHcCCCCchhH
Q 044352          474 TMGEEFFEMGLRKPDGF  490 (544)
Q Consensus       474 ~~~~~~~~~~p~~~~~~  490 (544)
                      +.|+.+-.++| +|..|
T Consensus       482 KAFd~lE~lDP-~pEnW  497 (557)
T KOG3785|consen  482 KAFDELEILDP-TPENW  497 (557)
T ss_pred             HhhhHHHccCC-Ccccc
Confidence            99998888887 34443

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

Probab=99.61  E-value=1.5e-11  Score=108.00  Aligned_cols=282  Identities=13%  Similarity=0.039  Sum_probs=154.5

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHH
Q 044352          192 VSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKL  271 (544)
Q Consensus       192 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  271 (544)
                      .|++.+|+++..+-.+.+ +.....|..-.++.-..|+.+.+-.++.+..+.--.++...+-+..+.....|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~-e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHG-EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            455555555555544443 2222333334444445555555555555555441133334444444555555555555555


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHh
Q 044352          272 FKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDV-------FTGSALIDMYSKCGSLKDARTLFEI  344 (544)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~A~~~~~~  344 (544)
                      +.++.+.+ +-+........++|.+.|++.....++..+.+.+.-.+.       .++..++.-....+..+.-...++.
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 223444455555555555555555555555555443332       2344444444444455555556665


Q ss_pred             cCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCch
Q 044352          345 TRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISK  421 (544)
Q Consensus       345 ~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  421 (544)
                      .+.   .++..-.+++.-+.+.|+.++|.++.++..+++..|+    ....-.+.+.++...-++..++..+.  .+.++
T Consensus       255 ~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~--h~~~p  328 (400)
T COG3071         255 QPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQ--HPEDP  328 (400)
T ss_pred             ccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHh--CCCCh
Confidence            553   3566666667777777777777777777777655555    22222455666666666666666553  33334


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhC-CCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHH
Q 044352          422 EHYACVVDMLCRSGRMVEAYDLLRQV-PMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFE  481 (544)
Q Consensus       422 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  481 (544)
                      ..+..++..|.+.+.+.+|.+.|+.. ...|+...+..++.++.+.|+.++|....++++.
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            55666666666666666666666654 2555666666666666666666666666666554

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

Probab=99.60  E-value=3.4e-12  Score=108.47  Aligned_cols=275  Identities=12%  Similarity=0.033  Sum_probs=188.2

Q ss_pred             hHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC-CCCch------hHHHHHH
Q 044352           15 YLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP-NPNVF------MLNWMVM   86 (544)
Q Consensus        15 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~------~~~~l~~   86 (544)
                      .|..=++.+ -+++.+.|...|-++++. +.+.. ++..|+..|.+.|..|.|+++-+.+. .||..      +...|..
T Consensus        38 ~Yv~GlNfL-Ls~Q~dKAvdlF~e~l~~d~~t~e-~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~  115 (389)
T COG2956          38 DYVKGLNFL-LSNQPDKAVDLFLEMLQEDPETFE-AHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGR  115 (389)
T ss_pred             HHHhHHHHH-hhcCcchHHHHHHHHHhcCchhhH-HHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHH
Confidence            344444433 456788888888888888 44455 88888888888899999998888876 44432      3445666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCCh----hHHHHHHHHHHhCC
Q 044352           87 ASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDV----SVGNALIDMYSKCG  162 (544)
Q Consensus        87 ~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~  162 (544)
                      -|...|-++.|.++|..+.+.+. --......++..|-...+|++|+.+-+++.+.+-.+..    ..|.-+...+....
T Consensus       116 Dym~aGl~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~  194 (389)
T COG2956         116 DYMAAGLLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASS  194 (389)
T ss_pred             HHHHhhhhhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhh
Confidence            77888888888888888877432 24456777888888888888888888888877633332    34556666666677


Q ss_pred             CHHHHHHHHhhccCCChh---hHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHH
Q 044352          163 LLCSARRVFHGMFERDVV---SWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSR  239 (544)
Q Consensus       163 ~~~~A~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  239 (544)
                      +.+.|...+.+..+.|..   .--.+.+.....|+++.|.+.++...+.+..--+.+...|..+|...|+.++....+..
T Consensus       195 ~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~  274 (389)
T COG2956         195 DVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRR  274 (389)
T ss_pred             hHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            788888888777654433   33445567777888888888888877765444455667777788888888888888777


Q ss_pred             hhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhc
Q 044352          240 MTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGL  296 (544)
Q Consensus       240 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  296 (544)
                      +.+.  .+....-..+...-....-.+.|...+.+-+..  +|+...+..++.....
T Consensus       275 ~~~~--~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~  327 (389)
T COG2956         275 AMET--NTGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLA  327 (389)
T ss_pred             HHHc--cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhc
Confidence            7766  334444444444444445556666665555544  6777777777766443

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

Probab=99.60  E-value=5.3e-12  Score=107.31  Aligned_cols=296  Identities=15%  Similarity=0.157  Sum_probs=171.8

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCH------hHHHHHHHHHHcCCCH
Q 044352          192 VSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDL------VTWNAMISGFAQSKRE  265 (544)
Q Consensus       192 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~  265 (544)
                      +++.++|.++|-+|.+.. +.+..+.-+|.+.|.+.|..+.|+++.+.+.+.   ||.      .....|..-|...|-+
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~  123 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLL  123 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhh
Confidence            456677777777776532 223334455667777777777777777776643   322      1233455556667777


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhc
Q 044352          266 NEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEIT  345 (544)
Q Consensus       266 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  345 (544)
                      |.|..+|..+.+.+ ..-......++..|....++++|+.+-.++.+.+..+..   ..+..                  
T Consensus       124 DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~---~eIAq------------------  181 (389)
T COG2956         124 DRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYR---VEIAQ------------------  181 (389)
T ss_pred             hHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccch---hHHHH------------------
Confidence            77777776666533 222333444444444445555554444444443322110   00111                  


Q ss_pred             CCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHH
Q 044352          346 RIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYA  425 (544)
Q Consensus       346 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  425 (544)
                            .|..+...+....+.+.|..++.+..+.+ +.+...-..+.......|+++.|.+.++.+.+. +...-+.+..
T Consensus       182 ------fyCELAq~~~~~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQ-n~~yl~evl~  253 (389)
T COG2956         182 ------FYCELAQQALASSDVDRARELLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQ-NPEYLSEVLE  253 (389)
T ss_pred             ------HHHHHHHHHhhhhhHHHHHHHHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHh-ChHHHHHHHH
Confidence                  23445555556667777777777777652 334444555666677777777777777777765 4444456677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhCC-CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH-h--cC
Q 044352          426 CVVDMLCRSGRMVEAYDLLRQVP-MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA-A--DG  501 (544)
Q Consensus       426 ~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~-~--~g  501 (544)
                      .|..+|...|+.++...++.++. ..+....-..+........-.+.|...+-+-+...|. ...+..++.... .  .|
T Consensus       254 ~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt-~~gf~rl~~~~l~daeeg  332 (389)
T COG2956         254 MLYECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPT-MRGFHRLMDYHLADAEEG  332 (389)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCc-HHHHHHHHHhhhcccccc
Confidence            77777777888877777776653 4444555555555545555567777777777777774 444444444433 2  24


Q ss_pred             ChHHHHHHHHHHHhcCCCCCC
Q 044352          502 EWHEAENLRKIMKEKNVQKQP  522 (544)
Q Consensus       502 ~~~~A~~~~~~~~~~~~~~~~  522 (544)
                      ...+-+..++.|+...++..|
T Consensus       333 ~~k~sL~~lr~mvge~l~~~~  353 (389)
T COG2956         333 RAKESLDLLRDMVGEQLRRKP  353 (389)
T ss_pred             chhhhHHHHHHHHHHHHhhcC
Confidence            577777788888776665554

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

Probab=99.60  E-value=1.3e-10  Score=102.27  Aligned_cols=294  Identities=10%  Similarity=-0.015  Sum_probs=213.6

Q ss_pred             cCChhHHHHHHHHHHHc-CCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCC-HhHHHHHHHHHHcCCCHHHHH
Q 044352          192 VSKVDEAVVLFERMKLE-GLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPD-LVTWNAMISGFAQSKRENEAL  269 (544)
Q Consensus       192 ~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~  269 (544)
                      .++-..+...+-.+... -++-+......+...+...|+.++|+..|++....  .|+ ..........+.+.|++++..
T Consensus       209 ~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~  286 (564)
T KOG1174|consen  209 NFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDS  286 (564)
T ss_pred             hcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHH
Confidence            34444444443333222 23556677788888888888888888888887744  232 222333334456778888887


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--
Q 044352          270 KLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI--  347 (544)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--  347 (544)
                      .+...+.... .-+...|..-.......++++.|..+-.+.++.. +.+...+..-...+...++.++|.-.|+....  
T Consensus       287 ~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La  364 (564)
T KOG1174|consen  287 ALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA  364 (564)
T ss_pred             HHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc
Confidence            7777776432 2233334344444556778888888888877765 33566777777888899999999999986653  


Q ss_pred             -ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHhc-CCchHHHHHHHHHHHHHhCCCCc-hhH
Q 044352          348 -KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVL-SACSH-GGLVEKGLEIFRSMKERYGVKIS-KEH  423 (544)
Q Consensus       348 -~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~-~~~~~-~~~~~~a~~~~~~~~~~~~~~~~-~~~  423 (544)
                       -+..+|..|+.+|...|++.+|...-+..... ++.+..++..+. ..|.. ...-++|..++++..+   +.|+ ...
T Consensus       365 p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~---~~P~Y~~A  440 (564)
T KOG1174|consen  365 PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK---INPIYTPA  440 (564)
T ss_pred             hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc---cCCccHHH
Confidence             46789999999999999999999988887765 456777777663 34433 3345788999888764   3555 556


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhC-CCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHH
Q 044352          424 YACVVDMLCRSGRMVEAYDLLRQV-PMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVML  493 (544)
Q Consensus       424 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  493 (544)
                      ...+.+.+...|.+.+++.++++. ...||....+.++..+...+.+++|...|..++.++|+|..+...+
T Consensus       441 V~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~~sl~Gl  511 (564)
T KOG1174|consen  441 VNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSKRTLRGL  511 (564)
T ss_pred             HHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccchHHHHHH
Confidence            778888999999999999999986 4788999999999999999999999999999999999876665544

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

Probab=99.59  E-value=1.5e-10  Score=106.51  Aligned_cols=456  Identities=13%  Similarity=0.046  Sum_probs=259.3

Q ss_pred             hHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCch--hHHHHHHHHHhc
Q 044352           15 YLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVF--MLNWMVMASAFT   91 (544)
Q Consensus        15 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~l~~~~~~~   91 (544)
                      .+..=++.+..+|++++|.+...+++.. |.+.+ ++..-+-++.+.+++++|+.+.+.-......  -+-.-+.+..+.
T Consensus        14 ~l~t~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~-a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrl   92 (652)
T KOG2376|consen   14 ALLTDLNRHGKNGEYEEAVKTANKILSIVPDDED-AIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAYCEYRL   92 (652)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHhcCCCcHh-hHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHHc
Confidence            4555567788999999999999999999 66666 8888888889999999999776665421111  112234455678


Q ss_pred             CCHHHHHHHHHHHHhcccccC-HHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCCh-hHHHHHHHHHHhCCCHHHHHH
Q 044352           92 GNFQEAIGYFSLMREFIYRCN-KFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDV-SVGNALIDMYSKCGLLCSARR  169 (544)
Q Consensus        92 ~~~~~A~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~A~~  169 (544)
                      +..++|+..++-     ..++ ..+...-.+.+.+.|++++|..+|..+.+.+.+.-. .....++.+    +-.-.+. 
T Consensus        93 nk~Dealk~~~~-----~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~----~a~l~~~-  162 (652)
T KOG2376|consen   93 NKLDEALKTLKG-----LDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAV----AAALQVQ-  162 (652)
T ss_pred             ccHHHHHHHHhc-----ccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHH----HHhhhHH-
Confidence            999999999883     3333 336666677888999999999999999887632211 111222211    1111121 


Q ss_pred             HHhhccCCChhhHHHH---HHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCC
Q 044352          170 VFHGMFERDVVSWTSM---ISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFV  246 (544)
Q Consensus       170 ~~~~~~~~~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  246 (544)
                      +.+..+.....+|..+   ...++..|++.+|+++++...+.+.+           .+ ..++.. -.++-.+       
T Consensus       163 ~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e-----------~l-~~~d~~-eEeie~e-------  222 (652)
T KOG2376|consen  163 LLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICRE-----------KL-EDEDTN-EEEIEEE-------  222 (652)
T ss_pred             HHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH-----------hh-cccccc-hhhHHHH-------
Confidence            3444443333333333   33456678888888888876322100           00 000000 0000000       


Q ss_pred             CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHH---HHHhhccCchHH--------------HHHHHHH
Q 044352          247 PDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGV---LQAGGLTGSIQI--------------GREIHAL  309 (544)
Q Consensus       247 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~--------------a~~~~~~  309 (544)
                      .+ ..-..|...+-..|+..+|..+|...+... ++|.......   +.+.....++..              +...+..
T Consensus       223 l~-~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~  300 (652)
T KOG2376|consen  223 LN-PIRVQLAYVLQLQGQTAEASSIYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSK  300 (652)
T ss_pred             HH-HHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHH
Confidence            00 011223344445555555555555555443 2222111111   111111111111              0111111


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCcc-HHHHHHHHHHHHh--cCChHHHHHHHHHHHHcCCCCC--
Q 044352          310 VCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKN-VASWNAMIGCYGK--HGMVDSSIELFERMLEEGMRAN--  384 (544)
Q Consensus       310 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~l~~~~~~--~g~~~~A~~~~~~~~~~~~~~~--  384 (544)
                      +.... ......-+.++..  -.+..+.+.++........ ...+..++....+  ...+..+.+++...-+.  .|.  
T Consensus       301 Ls~~q-k~~i~~N~~lL~l--~tnk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s  375 (652)
T KOG2376|consen  301 LSKKQ-KQAIYRNNALLAL--FTNKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKS  375 (652)
T ss_pred             HHHHH-HHHHHHHHHHHHH--HhhhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchh
Confidence            11110 0011111222222  2456677777777666543 2344444444332  23577788888887765  333  


Q ss_pred             HHHHHHHHHHHhcCCchHHHHHHHH--------HHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-----CCC
Q 044352          385 EVTLISVLSACSHGGLVEKGLEIFR--------SMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-----MYV  451 (544)
Q Consensus       385 ~~~~~~l~~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~  451 (544)
                      ..+....+......|+++.|.+++.        .+.+   +...+.+...+...+.+.++.+.|..++..+.     ..+
T Consensus       376 ~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~---~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t  452 (652)
T KOG2376|consen  376 KVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILE---AKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQT  452 (652)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhh---hccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcc
Confidence            3455666677889999999999998        4432   23345567778888888888777777776652     112


Q ss_pred             Chh----HHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHH
Q 044352          452 TNS----MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKI  512 (544)
Q Consensus       452 ~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  512 (544)
                      ...    .+.-++..-.+.|+-++|...++++++.+|++..++..+..+|++. +.+.|..+=+.
T Consensus       453 ~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  453 GSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFNPNDTDLLVQLVTAYARL-DPEKAESLSKK  516 (652)
T ss_pred             cchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCCchHHHHHHHHHHHHhc-CHHHHHHHhhc
Confidence            222    3333333445679999999999999999999999999999999776 45666665433

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

Probab=99.59  E-value=8.5e-12  Score=109.45  Aligned_cols=283  Identities=11%  Similarity=0.027  Sum_probs=225.1

Q ss_pred             hcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHH
Q 044352          226 RRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGRE  305 (544)
Q Consensus       226 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  305 (544)
                      ..|++.+|++...+-.+.+ .-....|..-+.+--+.|+.+.+-.++.+..+..-.++..............|+++.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~-e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHG-EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            3699999999999988876 334456666678888999999999999999876435566667777788899999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCcc-----------HHHHHHHHHHHHhcCChHHHHHHHH
Q 044352          306 IHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKN-----------VASWNAMIGCYGKHGMVDSSIELFE  374 (544)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----------~~~~~~l~~~~~~~g~~~~A~~~~~  374 (544)
                      -...+.+.+. .++.+......+|.+.|++.....++..+.+.+           ..+|..+++-....+..+.-...++
T Consensus       175 ~v~~ll~~~p-r~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~  253 (400)
T COG3071         175 NVDQLLEMTP-RHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWK  253 (400)
T ss_pred             HHHHHHHhCc-CChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            9999998874 467888999999999999999999999887632           2368888887777777777777777


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCC
Q 044352          375 RMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVT  452 (544)
Q Consensus       375 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~  452 (544)
                      ..-.+ .+.++..-..++.-+...|+.++|.++..+..++ +..|.   ...++ ...+-++...-++..++..  .+.+
T Consensus       254 ~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~-~~D~~---L~~~~-~~l~~~d~~~l~k~~e~~l~~h~~~  327 (400)
T COG3071         254 NQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKR-QWDPR---LCRLI-PRLRPGDPEPLIKAAEKWLKQHPED  327 (400)
T ss_pred             hccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHh-ccChh---HHHHH-hhcCCCCchHHHHHHHHHHHhCCCC
Confidence            77665 5667888888899999999999999999999887 55555   11111 2234555554444444331  2345


Q ss_pred             hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          453 NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       453 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +..+.+++..|.+.+.+.+|...|+.+++..| +...+..++.++.+.|+..+|.+.+++.+-.-
T Consensus       328 p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~-s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~  391 (400)
T COG3071         328 PLLLSTLGRLALKNKLWGKASEALEAALKLRP-SASDYAELADALDQLGEPEEAEQVRREALLLT  391 (400)
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCC-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence            58889999999999999999999999999998 68999999999999999999999999887443

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

Probab=99.57  E-value=3.6e-09  Score=98.59  Aligned_cols=495  Identities=10%  Similarity=0.021  Sum_probs=326.5

Q ss_pred             CCCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhc--------CCChHHHHHHhccCC---
Q 044352            7 PINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAG--------CGDVNSARLVFDKIP---   74 (544)
Q Consensus         7 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~--------~g~~~~A~~~~~~~~---   74 (544)
                      ..+|.|-..+.+.+..... .-...-..+|+.+++. |.+.. +|...+..-..        ...++..-..|++..   
T Consensus        21 lRnp~svk~W~RYIe~k~~-sp~k~~~~lYERal~~lp~syk-iW~~YL~~R~~~vk~~~~T~~~~~~vn~c~er~lv~m   98 (835)
T KOG2047|consen   21 LRNPFSVKCWLRYIEHKAG-SPDKQRNLLYERALKELPGSYK-IWYDYLKARRAQVKHLCPTDPAYESVNNCFERCLVFM   98 (835)
T ss_pred             HcCchhHHHHHHHHHHHcc-CChHHHHHHHHHHHHHCCCchH-HHHHHHHHHHHHhhccCCCChHHHHHHHHHHHHHHHH
Confidence            4567777777777775544 2334456789999999 77777 88877743211        122333333444332   


Q ss_pred             CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhc-ccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHH
Q 044352           75 NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREF-IYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNA  153 (544)
Q Consensus        75 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  153 (544)
                      ..=+..|-..+..+..+|+.......|...+.. -+......|...+......+-++-+..++++.++.    ++...+-
T Consensus        99 HkmpRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~ee  174 (835)
T KOG2047|consen   99 HKMPRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREE  174 (835)
T ss_pred             hcCCHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHH
Confidence            344567888888889999999999999887753 22334456777888888888899999999998865    3444677


Q ss_pred             HHHHHHhCCCHHHHHHHHhhccCC----------ChhhHHHHHHHHhccCCh---hHHHHHHHHHHHcCCCCC--HhhHH
Q 044352          154 LIDMYSKCGLLCSARRVFHGMFER----------DVVSWTSMISGYCNVSKV---DEAVVLFERMKLEGLEPN--QFTYN  218 (544)
Q Consensus       154 l~~~~~~~~~~~~A~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~--~~~~~  218 (544)
                      .+..++..+++++|-+.+..+...          +...|..+-....++-+.   -.+..+++.+...  -+|  ...|.
T Consensus       175 yie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~  252 (835)
T KOG2047|consen  175 YIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWC  252 (835)
T ss_pred             HHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHH
Confidence            788889999999999988888552          344566666655554332   2334444444432  334  34678


Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcC----------------C------CHHHHHHHHHHHH
Q 044352          219 AIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQS----------------K------RENEALKLFKGML  276 (544)
Q Consensus       219 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------~------~~~~a~~~~~~~~  276 (544)
                      +|...|.+.|.+++|.++|++....  ..++..|..+.+.|++-                +      +++-.+..|+.+.
T Consensus       253 SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm  330 (835)
T KOG2047|consen  253 SLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLM  330 (835)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHH
Confidence            8999999999999999999987765  44555555555555431                1      1223334444444


Q ss_pred             HcC-----------CCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcC-----CCCCHHHHHHHHHHHHhcCCHHHHHH
Q 044352          277 VSG-----------IKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMG-----LHIDVFTGSALIDMYSKCGSLKDART  340 (544)
Q Consensus       277 ~~~-----------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~A~~  340 (544)
                      ...           -+.+...+..-+  -...|+..+....+.++.+.-     +......|..+...|-..|+++.|..
T Consensus       331 ~rr~~~lNsVlLRQn~~nV~eW~kRV--~l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRv  408 (835)
T KOG2047|consen  331 NRRPLLLNSVLLRQNPHNVEEWHKRV--KLYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARV  408 (835)
T ss_pred             hccchHHHHHHHhcCCccHHHHHhhh--hhhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHH
Confidence            321           011222232222  233455666677777766541     11124577888999999999999999


Q ss_pred             HHHhcCCcc---H----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC----------C-------CHHHHHHHHHHHh
Q 044352          341 LFEITRIKN---V----ASWNAMIGCYGKHGMVDSSIELFERMLEEGMR----------A-------NEVTLISVLSACS  396 (544)
Q Consensus       341 ~~~~~~~~~---~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----------~-------~~~~~~~l~~~~~  396 (544)
                      +|++..+-+   +    .+|..-...-.++.+++.|++++++.....-.          |       +...|...+....
T Consensus       409 ifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleE  488 (835)
T KOG2047|consen  409 IFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEE  488 (835)
T ss_pred             HHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHH
Confidence            999887632   2    35666666667888999999999887652111          1       1234555666666


Q ss_pred             cCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC---CCCC-hhHHHHHHHHHhh---cCCh
Q 044352          397 HGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP---MYVT-NSMAGAFRNGCNI---HGRR  469 (544)
Q Consensus       397 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~-~~~~~~l~~~~~~---~g~~  469 (544)
                      ..|-++....+|+++.+..-  .++.+.-..+..+....-++++.++|++-.   ..|. ...|+.++.-+.+   ....
T Consensus       489 s~gtfestk~vYdriidLri--aTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~kl  566 (835)
T KOG2047|consen  489 SLGTFESTKAVYDRIIDLRI--ATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKL  566 (835)
T ss_pred             HhccHHHHHHHHHHHHHHhc--CCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCH
Confidence            77888889999999887522  244444555555667778899999999853   3444 3477777665443   3479


Q ss_pred             HHHHHHHHHHHHcCCCCc--hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          470 DLAVTMGEEFFEMGLRKP--DGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       470 ~~A~~~~~~~~~~~p~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      +.|+.+|+++++.-|+..  ..|..++..-.+-|....|+.+|+++..
T Consensus       567 EraRdLFEqaL~~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~  614 (835)
T KOG2047|consen  567 ERARDLFEQALDGCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS  614 (835)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            999999999999777422  3456666666777999999999998643

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.53  E-value=1.7e-09  Score=100.86  Aligned_cols=451  Identities=11%  Similarity=0.041  Sum_probs=287.6

Q ss_pred             chHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHH
Q 044352           14 NYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASA   89 (544)
Q Consensus        14 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~   89 (544)
                      .+++.-+.-|...+++...+...+.+++. +.... +....+-.+...|+-++|........   ..+..+|..+.-.+-
T Consensus         8 ~~lF~~~lk~yE~kQYkkgLK~~~~iL~k~~eHge-slAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R   86 (700)
T KOG1156|consen    8 NALFRRALKCYETKQYKKGLKLIKQILKKFPEHGE-SLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQR   86 (700)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHhCCccch-hHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHh
Confidence            35666666677999999999999999999 55566 66777777788899999999988766   456778999998888


Q ss_pred             hcCCHHHHHHHHHHHHhccccc-CHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHH
Q 044352           90 FTGNFQEAIGYFSLMREFIYRC-NKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSAR  168 (544)
Q Consensus        90 ~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  168 (544)
                      ...++++|+..|+.+...  .| |...+.-+.-.-++.|+++.......++.+.. +.....|..++.++.-.|+...|.
T Consensus        87 ~dK~Y~eaiKcy~nAl~~--~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~  163 (700)
T KOG1156|consen   87 SDKKYDEAIKCYRNALKI--EKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMAL  163 (700)
T ss_pred             hhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHH
Confidence            899999999999999984  44 44566666555578888888888888887763 445566788888888889999999


Q ss_pred             HHHhhccC-----CChhhHHHH------HHHHhccCChhHHHHHHHHHHHcCCCCCHhhH-HHHHHHHHhcCChHHHHHH
Q 044352          169 RVFHGMFE-----RDVVSWTSM------ISGYCNVSKVDEAVVLFERMKLEGLEPNQFTY-NAIIASYARRGDSNAAFAF  236 (544)
Q Consensus       169 ~~~~~~~~-----~~~~~~~~l------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~  236 (544)
                      .+++...+     ++...+...      .......|..++|.+.+..-...  ..|...+ ..-...+.+.+++++|..+
T Consensus       164 ~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~  241 (700)
T KOG1156|consen  164 EILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKV  241 (700)
T ss_pred             HHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHH
Confidence            88887743     333333322      24456678888888877665432  2233333 3345667788999999999


Q ss_pred             HHHhhhCCCCCCHhHHHHHH-HHHHcCCCHHHHH-HHHHHHHHcCCCCCHHHHHHH-HHHhhccCchHHHHHHHHHHHHc
Q 044352          237 FSRMTAEGFVPDLVTWNAMI-SGFAQSKRENEAL-KLFKGMLVSGIKPNNVTVTGV-LQAGGLTGSIQIGREIHALVCRM  313 (544)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~l~-~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~  313 (544)
                      +..+...  .||...|.... .++.+-.+--+++ .+|...-+.  .|.......+ +.......-.+....++....+.
T Consensus       242 y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~K  317 (700)
T KOG1156|consen  242 YRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSK  317 (700)
T ss_pred             HHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchhHHHHHHHHHHHhhc
Confidence            9999987  56666665544 4443333333333 555554432  2221111111 11112222234445566666777


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHH----HHHHHHhcC--------------CccHH--HHHHHHHHHHhcCChHHHHHHH
Q 044352          314 GLHIDVFTGSALIDMYSKCGSLKD----ARTLFEITR--------------IKNVA--SWNAMIGCYGKHGMVDSSIELF  373 (544)
Q Consensus       314 ~~~~~~~~~~~l~~~~~~~~~~~~----A~~~~~~~~--------------~~~~~--~~~~l~~~~~~~g~~~~A~~~~  373 (544)
                      |+++   ++..+...|-.-...+-    +..+...+.              .|...  ++.-++..+-..|+++.|...+
T Consensus       318 g~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yI  394 (700)
T KOG1156|consen  318 GVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYI  394 (700)
T ss_pred             CCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            7554   33333333322111111    111111111              12233  3345666777888999999988


Q ss_pred             HHHHHcCCCCCH-HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCC-
Q 044352          374 ERMLEEGMRANE-VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYV-  451 (544)
Q Consensus       374 ~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  451 (544)
                      +..+.+  .|+. ..|..-.+.+...|++++|..++++..+.  ..+|...-..-+.-..+.++.++|.++........ 
T Consensus       395 d~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~el--D~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  395 DLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQEL--DTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhc--cchhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            888885  5543 45666667788888999998888888652  33444433356666778888888888876653111 


Q ss_pred             C--------hhHHHHH--HHHHhhcCChHHHHHHHHHHHH
Q 044352          452 T--------NSMAGAF--RNGCNIHGRRDLAVTMGEEFFE  481 (544)
Q Consensus       452 ~--------~~~~~~l--~~~~~~~g~~~~A~~~~~~~~~  481 (544)
                      +        .-.|..+  +.+|.+.|++..|++-|..+.+
T Consensus       471 ~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k  510 (700)
T KOG1156|consen  471 GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEK  510 (700)
T ss_pred             chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHH
Confidence            1        1133332  2356677777777766655544

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.52  E-value=6e-12  Score=111.44  Aligned_cols=198  Identities=14%  Similarity=0.059  Sum_probs=164.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044352          318 DVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSA  394 (544)
Q Consensus       318 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  394 (544)
                      ....+..+...+...|++++|...+++...   .+...+..+...+...|++++|.+.+++..... +.+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            355677778888888999999888886653   345678888888999999999999999998863 4466778888888


Q ss_pred             HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHH
Q 044352          395 CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A  472 (544)
                      +...|++++|...++++......+.....+..++.++...|++++|...+++..  .+.+...+..++..+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999988642223345677788899999999999999998864  334566788888899999999999


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          473 VTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      ...++++++..|.++..+..++.++...|+.++|..+.+.+.+.
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            99999999998888899999999999999999999998877653

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.

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.50  E-value=4.9e-10  Score=104.45  Aligned_cols=437  Identities=8%  Similarity=-0.005  Sum_probs=228.8

Q ss_pred             cCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHH
Q 044352           91 TGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRV  170 (544)
Q Consensus        91 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  170 (544)
                      .+++...+...+.+++. .+-...|.....-.+...|+.++|........+.. ..+.+-|..+.-.+....++++|.+.
T Consensus        20 ~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKc   97 (700)
T KOG1156|consen   20 TKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKC   97 (700)
T ss_pred             HHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHH
Confidence            44555555555555542 22233333333333445555566655555544432 33444455555555555566666666


Q ss_pred             HhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCC-CC
Q 044352          171 FHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEG-FV  246 (544)
Q Consensus       171 ~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~  246 (544)
                      |.....   .|...|.-+.-.-++.|+++........+.+.. +.....|..+..++.-.|++..|..+++...+.. -.
T Consensus        98 y~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~  176 (700)
T KOG1156|consen   98 YRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTS  176 (700)
T ss_pred             HHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Confidence            655533   334455554444455555555555555554431 1223344455555555566666666666555442 13


Q ss_pred             CCHhHHHHHH------HHHHcCCCHHHHHHHHHHHHHcCCCCCHHHH-HHHHHHhhccCchHHHHHHHHHHHHcCCCCCH
Q 044352          247 PDLVTWNAMI------SGFAQSKRENEALKLFKGMLVSGIKPNNVTV-TGVLQAGGLTGSIQIGREIHALVCRMGLHIDV  319 (544)
Q Consensus       247 ~~~~~~~~l~------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  319 (544)
                      |+...|....      .....+|.+++|++.+..-...  ..|...+ ..-...+.+.++.++|..++..+.... +.+.
T Consensus       177 ~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn-Pdn~  253 (700)
T KOG1156|consen  177 PSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN-PDNL  253 (700)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC-chhH
Confidence            4444333222      2234455556665555443321  1122221 222334455666666666666666654 2233


Q ss_pred             HHHHHHHHHHHhcCCHHHH-HHHHHhcCCc---cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044352          320 FTGSALIDMYSKCGSLKDA-RTLFEITRIK---NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSAC  395 (544)
Q Consensus       320 ~~~~~l~~~~~~~~~~~~A-~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  395 (544)
                      ..|..+..++.+-.+.-++ ..+|....+.   ....-..=+.......-.+..-.++..+.+.|+++--..+..+-.  
T Consensus       254 ~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk--  331 (700)
T KOG1156|consen  254 DYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYK--  331 (700)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHh--
Confidence            3333344444322222222 2455443321   000000001111111223334455666677776653333332221  


Q ss_pred             hcCCchHHHHHHHHHHHHHh-C------------CCCchhHH--HHHHHHHHhcCCHHHHHHHHHhCC-CCCCh-hHHHH
Q 044352          396 SHGGLVEKGLEIFRSMKERY-G------------VKISKEHY--ACVVDMLCRSGRMVEAYDLLRQVP-MYVTN-SMAGA  458 (544)
Q Consensus       396 ~~~~~~~~a~~~~~~~~~~~-~------------~~~~~~~~--~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~-~~~~~  458 (544)
                       .-...+-..++.-.+.... +            -+|....|  .-++..+-+.|+++.|..+++.+. ..|+. ..|..
T Consensus       332 -~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~  410 (700)
T KOG1156|consen  332 -DPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLV  410 (700)
T ss_pred             -chhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHH
Confidence             1111111111111111100 1            14554444  456677889999999999999875 45553 45556


Q ss_pred             HHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-----CCCCceEEEecC--
Q 044352          459 FRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQ-----KQPGFSRVEKRN--  531 (544)
Q Consensus       459 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-----~~~~~~~~~~~~--  531 (544)
                      =++.+.+.|+.++|..+++++.+++-.|...-...+.-..++++.++|.++.-...+.|..     .+..++|..+++  
T Consensus       411 KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~  490 (700)
T KOG1156|consen  411 KARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGE  490 (700)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhH
Confidence            6678899999999999999999999767776668899999999999999999988876642     345788988887  


Q ss_pred             -eeecc
Q 044352          532 -EFVEK  536 (544)
Q Consensus       532 -~~~~~  536 (544)
                       ++..|
T Consensus       491 ay~r~~  496 (700)
T KOG1156|consen  491 AYLRQN  496 (700)
T ss_pred             HHHHHH
Confidence             55543

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

Probab=99.49  E-value=8.3e-10  Score=106.44  Aligned_cols=483  Identities=11%  Similarity=0.038  Sum_probs=252.2

Q ss_pred             CccccCCCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc--ccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCch
Q 044352            2 NRLIFPINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN--DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVF   79 (544)
Q Consensus         2 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~   79 (544)
                      ++.++.|   ++.+|..++..|+..|+++.|- +|..|.-.  |-+.. .++.++....+.|+.+.+.       .|.+.
T Consensus        17 e~~gi~P---nRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~-vf~~lv~sh~~And~Enpk-------ep~aD   84 (1088)
T KOG4318|consen   17 EISGILP---NRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREG-VFRGLVASHKEANDAENPK-------EPLAD   84 (1088)
T ss_pred             HHhcCCC---chhhHHHHHHHHcccCCCcccc-chhhhhcccccccch-hHHHHHhcccccccccCCC-------CCchh
Confidence            3455555   4479999999999999999988 88777666  66666 8888998888888876655       77888


Q ss_pred             hHHHHHHHHHhcCCHHH---HHHHHHHHHh----cccccCHHHHHHHHHHhhCCCChHHHH---------HHHHHHHHcC
Q 044352           80 MLNWMVMASAFTGNFQE---AIGYFSLMRE----FIYRCNKFTFSIVLKACVGLLDIKKGK---------QVHAVATQMG  143 (544)
Q Consensus        80 ~~~~l~~~~~~~~~~~~---A~~~~~~~~~----~~~~p~~~~~~~ll~~~~~~~~~~~a~---------~~~~~~~~~~  143 (544)
                      +|..+..+|...||..-   ..+.++....    .|+.- ..-+ .++...+.-+-...|.         .++....+.+
T Consensus        85 tyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs-~e~~-fl~k~~c~p~~lpda~n~illlv~eglwaqllkll  162 (1088)
T KOG4318|consen   85 TYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGS-PERW-FLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLL  162 (1088)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCc-HHHH-HHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999998754   2221222211    11110 0111 1111011111111111         1122222221


Q ss_pred             C-CCChhHHH---HHHHHHHh-CCCHHHHHHHHhhccC-CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhH
Q 044352          144 F-ENDVSVGN---ALIDMYSK-CGLLCSARRVFHGMFE-RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTY  217 (544)
Q Consensus       144 ~-~~~~~~~~---~l~~~~~~-~~~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  217 (544)
                      . .|...-++   ..++-+.. ...+++-......... ++..++.+.+.+-...|+.+.|..++.+|++.|++.+.+-|
T Consensus       163 ~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyF  242 (1088)
T KOG4318|consen  163 AKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYF  242 (1088)
T ss_pred             hhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccc
Confidence            0 01100000   01111111 1223333333333333 56666666666666667777777777777766666666655


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhcc
Q 044352          218 NAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLT  297 (544)
Q Consensus       218 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  297 (544)
                      -.++-+   .++...+..++.-|...|+.|+..|+...+-.+..+|....+        +.| .+....++.-+.+-.-.
T Consensus       243 wpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~--------~e~-sq~~hg~tAavrsaa~r  310 (1088)
T KOG4318|consen  243 WPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYG--------EEG-SQLAHGFTAAVRSAACR  310 (1088)
T ss_pred             hhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhc--------ccc-cchhhhhhHHHHHHHhc
Confidence            555544   566666666666666666677666666655555554431111        112 12222222222222222


Q ss_pred             Cc-----hH--HHHHH---HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc-------cHHHHHHHHHHH
Q 044352          298 GS-----IQ--IGREI---HALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK-------NVASWNAMIGCY  360 (544)
Q Consensus       298 ~~-----~~--~a~~~---~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~l~~~~  360 (544)
                      |.     .+  ....+   +....=.|......+|....... ..|+-+...++...+..|       ++..+..++.-|
T Consensus       311 g~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~l~-hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqy  389 (1088)
T KOG4318|consen  311 GLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEKLR-HQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQY  389 (1088)
T ss_pred             ccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHHHH-HcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHH
Confidence            21     10  00111   11111123333334444433322 246555555555544432       333443333333


Q ss_pred             Hhc----------------------CChHHHHHHHHHHHHcCCCCCH----------------------------HHHHH
Q 044352          361 GKH----------------------GMVDSSIELFERMLEEGMRANE----------------------------VTLIS  390 (544)
Q Consensus       361 ~~~----------------------g~~~~A~~~~~~~~~~~~~~~~----------------------------~~~~~  390 (544)
                      .+.                      .+..+..+.+...     .||.                            ..-+.
T Consensus       390 Frr~e~~~~~~i~~~~qgls~~l~se~tp~vsell~~l-----rkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~q  464 (1088)
T KOG4318|consen  390 FRRIERHICSRIYYAGQGLSLNLNSEDTPRVSELLENL-----RKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQ  464 (1088)
T ss_pred             HHHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHHh-----CcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHH
Confidence            221                      1111111111111     1111                            12233


Q ss_pred             HHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-----CCCChhHHHHHHHHHhh
Q 044352          391 VLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-----MYVTNSMAGAFRNGCNI  465 (544)
Q Consensus       391 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~l~~~~~~  465 (544)
                      ++..|+..-+..+++..-++.... -+   ...|..++..+....+.+.|..+.++..     ...+..-+..+...+.+
T Consensus       465 l~l~l~se~n~lK~l~~~ekye~~-lf---~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r  540 (1088)
T KOG4318|consen  465 LHLTLNSEYNKLKILCDEEKYEDL-LF---AGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQR  540 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-Hh---hhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHH
Confidence            444444444445555444433221 22   2567788888888888889988888874     23344556677778888


Q ss_pred             cCChHHHHHHHHHHHHcC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 044352          466 HGRRDLAVTMGEEFFEMG---LRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQK  520 (544)
Q Consensus       466 ~g~~~~A~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  520 (544)
                      .+....+..++++..+.-   |.-...+..+.......|+.+.-.++.+-+...|+.-
T Consensus       541 ~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  541 LAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             hHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            888888998888887632   3334556667777777888888888888887777655

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.48  E-value=3.1e-11  Score=113.82  Aligned_cols=127  Identities=16%  Similarity=0.181  Sum_probs=86.9

Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHHHHHhC--CCC----chhHHHHHHHHHHhcCCHHHHHHHHHhCC-------C--CC-
Q 044352          388 LISVLSACSHGGLVEKGLEIFRSMKERYG--VKI----SKEHYACVVDMLCRSGRMVEAYDLLRQVP-------M--YV-  451 (544)
Q Consensus       388 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~--~~-  451 (544)
                      ++.+...|...+++++|..++++..+.+.  +.+    -..++..+...|...|++++|.++++++.       .  .+ 
T Consensus       328 l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~  407 (508)
T KOG1840|consen  328 LSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYG  407 (508)
T ss_pred             HHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChh
Confidence            44445556666666666666665544322  111    23467777788888888888888877653       1  11 


Q ss_pred             ChhHHHHHHHHHhhcCChHHHHHHHHHHHHc----CCCCc---hhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          452 TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEM----GLRKP---DGFVMLSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       452 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      ....++.++..|.+.+++++|.++|.+...+    +|++|   .+|..|+.+|.++|++++|+++.+.+.
T Consensus       408 ~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  408 VGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            2345677777888888888888888887653    34444   568889999999999999999988886

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.48  E-value=2.4e-09  Score=92.57  Aligned_cols=454  Identities=11%  Similarity=0.022  Sum_probs=268.7

Q ss_pred             HhhcCCChHHHHHHhccCCCC---C-chhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHH
Q 044352           56 VYAGCGDVNSARLVFDKIPNP---N-VFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKK  131 (544)
Q Consensus        56 ~~~~~g~~~~A~~~~~~~~~~---~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~  131 (544)
                      -+....++..|+.+++--...   . ..+-..+..++.+.|++++|+..|..+.+.. .|+......+.-...-.|.+.+
T Consensus        31 dfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~e  109 (557)
T KOG3785|consen   31 DFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIE  109 (557)
T ss_pred             HHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHH
Confidence            344567777787777654411   1 1222334566678899999999988887643 4555555555555555677777


Q ss_pred             HHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCC
Q 044352          132 GKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLE  211 (544)
Q Consensus       132 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  211 (544)
                      |.++-...     +.++--...++..-.+.++-++-..+-+.+... ..--.++.+.......+.+|.++|.+....  .
T Consensus       110 A~~~~~ka-----~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~-~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d--n  181 (557)
T KOG3785|consen  110 AKSIAEKA-----PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-LEDQLSLASVHYMRMHYQEAIDVYKRVLQD--N  181 (557)
T ss_pred             HHHHHhhC-----CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-HHHHHhHHHHHHHHHHHHHHHHHHHHHHhc--C
Confidence            77765543     333333445555556667766655554444332 233334555555556788899999888755  4


Q ss_pred             CCHhhHHHH-HHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 044352          212 PNQFTYNAI-IASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGV  290 (544)
Q Consensus       212 ~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  290 (544)
                      |+-...|.. .-+|.+..-++-+.+++.-..+.- +.++..-|..+....+.=+-..|.+-.+.+.+.+-..-+..-...
T Consensus       182 ~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~-pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~  260 (557)
T KOG3785|consen  182 PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQF-PDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLC  260 (557)
T ss_pred             hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhC-CCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHH
Confidence            444444433 345667777777777777766551 334445554444444433333444445555443322111111111


Q ss_pred             HHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCC-----
Q 044352          291 LQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGM-----  365 (544)
Q Consensus       291 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~-----  365 (544)
                      -.-+.--.+-+.|.+++--+.+.    -+.+-..++-.|.+.+++.+|..+.+.+....+.-|-.-...+...|+     
T Consensus       261 rHNLVvFrngEgALqVLP~L~~~----IPEARlNL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSr  336 (557)
T KOG3785|consen  261 RHNLVVFRNGEGALQVLPSLMKH----IPEARLNLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAALGQETGSR  336 (557)
T ss_pred             HcCeEEEeCCccHHHhchHHHhh----ChHhhhhheeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcH
Confidence            11122334456677766655543    233445667778999999999999999987666555433333444433     


Q ss_pred             --hHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHH
Q 044352          366 --VDSSIELFERMLEEGMRANE-VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYD  442 (544)
Q Consensus       366 --~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  442 (544)
                        ..-|...|+-.-..+..-|. .--..+..++.-..++++.+.++..+..  -+..|...-..+..+++..|.+.+|.+
T Consensus       337 eHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~s--YF~NdD~Fn~N~AQAk~atgny~eaEe  414 (557)
T KOG3785|consen  337 EHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIES--YFTNDDDFNLNLAQAKLATGNYVEAEE  414 (557)
T ss_pred             HHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHH--HhcCcchhhhHHHHHHHHhcChHHHHH
Confidence              33455555544444322221 1122334444455678899999888866  344455555678999999999999999


Q ss_pred             HHHhCCC--CCChhHH-HHHHHHHhhcCChHHHHHHHHHHHHcC-CCCc-hhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          443 LLRQVPM--YVTNSMA-GAFRNGCNIHGRRDLAVTMGEEFFEMG-LRKP-DGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       443 ~~~~~~~--~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +|-++..  -.+..+| ..++++|.+.+..+.|-.+   +++.+ |.+. ..+..++..|.+.|++=-|.+.|+.+...+
T Consensus       415 lf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~---~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD  491 (557)
T KOG3785|consen  415 LFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDM---MLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILD  491 (557)
T ss_pred             HHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHH---HHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC
Confidence            9988752  1244444 4556688899999887554   45555 4333 334556788999999999999999887654


Q ss_pred             CCCCCCceEEEecC
Q 044352          518 VQKQPGFSRVEKRN  531 (544)
Q Consensus       518 ~~~~~~~~~~~~~~  531 (544)
                        |.| ..|---+|
T Consensus       492 --P~p-EnWeGKRG  502 (557)
T KOG3785|consen  492 --PTP-ENWEGKRG  502 (557)
T ss_pred             --CCc-cccCCccc
Confidence              333 34544443

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

Probab=99.48  E-value=2.9e-12  Score=103.89  Aligned_cols=175  Identities=14%  Similarity=0.080  Sum_probs=146.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDML  431 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  431 (544)
                      +...|...|...|++..|..-+++.++.. +.+..++..+...|.+.|..+.|.+.|++..+  --+.+..+.|..+..+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls--l~p~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALS--LAPNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHh--cCCCccchhhhhhHHH
Confidence            45667788999999999999999999863 44667888889999999999999999999886  3466778999999999


Q ss_pred             HhcCCHHHHHHHHHhCCCCCC----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHH
Q 044352          432 CRSGRMVEAYDLLRQVPMYVT----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAE  507 (544)
Q Consensus       432 ~~~g~~~~A~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  507 (544)
                      |..|++++|...|+++...|.    ..+|.+++.+..+.|+++.|...|+++++++|+++.+...++..+.+.|++-.|.
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHH
Confidence            999999999999998753433    4578888888889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCCCceEEEec
Q 044352          508 NLRKIMKEKNVQKQPGFSRVEKR  530 (544)
Q Consensus       508 ~~~~~~~~~~~~~~~~~~~~~~~  530 (544)
                      .++++....+. .....-|+-++
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~ir  215 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIR  215 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHH
Confidence            99998876654 44444454443

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

Probab=99.48  E-value=2.8e-09  Score=101.59  Aligned_cols=407  Identities=11%  Similarity=-0.005  Sum_probs=243.5

Q ss_pred             CCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCC-CCChhHHHHH
Q 044352           76 PNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGF-ENDVSVGNAL  154 (544)
Q Consensus        76 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l  154 (544)
                      .++..|..+.-+..+.|+++.+.+.|++.... .......|..+...+...|.-..|..+++......- ++++..+-..
T Consensus       321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~-~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lma  399 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALPF-SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMA  399 (799)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh-hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHH
Confidence            45566666777777777777777777776643 223455666666667777777777777766554321 2233333333


Q ss_pred             HHHHH-hCCCHHHHHHHHhhccC--------CChhhHHHHHHHHhcc----C-------ChhHHHHHHHHHHHcCCCCCH
Q 044352          155 IDMYS-KCGLLCSARRVFHGMFE--------RDVVSWTSMISGYCNV----S-------KVDEAVVLFERMKLEGLEPNQ  214 (544)
Q Consensus       155 ~~~~~-~~~~~~~A~~~~~~~~~--------~~~~~~~~l~~~~~~~----~-------~~~~a~~~~~~~~~~~~~~~~  214 (544)
                      ...|. +.+..+++..+..++..        .....|..+.-+|...    .       ...++++.+++..+.+ +.|+
T Consensus       400 sklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d-~~dp  478 (799)
T KOG4162|consen  400 SKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD-PTDP  478 (799)
T ss_pred             HHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC-CCCc
Confidence            33333 33555555555544422        2233444444444321    1       1345566666665543 2222


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHh
Q 044352          215 FTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAG  294 (544)
Q Consensus       215 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  294 (544)
                      ...-.+.--|+..++++.|.+..++..+.+-.-+...|..|.-++...+++.+|+.+.+...+.- .-|......-+..-
T Consensus       479 ~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~-~~N~~l~~~~~~i~  557 (799)
T KOG4162|consen  479 LVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF-GDNHVLMDGKIHIE  557 (799)
T ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh-hhhhhhchhhhhhh
Confidence            22233444566677888888888887777546677788888888888888888888877766431 11111111111122


Q ss_pred             hccCchHHHHHHHHHHHHc----------------------------CCCCCHHHHHHHHHHHHhcC---CHHHHHHHHH
Q 044352          295 GLTGSIQIGREIHALVCRM----------------------------GLHIDVFTGSALIDMYSKCG---SLKDARTLFE  343 (544)
Q Consensus       295 ~~~~~~~~a~~~~~~~~~~----------------------------~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~  343 (544)
                      ...++.+++......+...                            .....+.++..+.......+   ..+.....+.
T Consensus       558 ~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~  637 (799)
T KOG4162|consen  558 LTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSST  637 (799)
T ss_pred             hhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCccc
Confidence            2233433333322221110                            00111222222221111100   1111111111


Q ss_pred             hcCCcc------HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCC
Q 044352          344 ITRIKN------VASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGV  417 (544)
Q Consensus       344 ~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  417 (544)
                      ....++      ...|......+...++.++|...+.+.... .+-....|......+...|.+.+|.+.|.....  --
T Consensus       638 ~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~--ld  714 (799)
T KOG4162|consen  638 VLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALA--LD  714 (799)
T ss_pred             ccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh--cC
Confidence            111222      235667777888899999999999888775 345667788777888899999999999988875  33


Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHH--HHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch
Q 044352          418 KISKEHYACVVDMLCRSGRMVEAYD--LLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD  488 (544)
Q Consensus       418 ~~~~~~~~~l~~~~~~~g~~~~A~~--~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  488 (544)
                      |.+.....+++.++.+.|+..-|..  ++..+.  .+.++..|..++..+.+.|+.+.|...|..++++.+.+|.
T Consensus       715 P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  715 PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCCc
Confidence            4557889999999999998777776  887764  5667889999999999999999999999999999977764

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

Probab=99.46  E-value=5.7e-12  Score=107.20  Aligned_cols=223  Identities=11%  Similarity=-0.019  Sum_probs=172.4

Q ss_pred             HHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--c-cHHHHHHHHHHHHhcCC
Q 044352          289 GVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI--K-NVASWNAMIGCYGKHGM  365 (544)
Q Consensus       289 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~g~  365 (544)
                      .+.++|.+.|-+.+|.+.++...+.  .|-+.+|..+.+.|.+.++...|+.++.....  | ++.....+.+.+...++
T Consensus       228 Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~  305 (478)
T KOG1129|consen  228 QMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQ  305 (478)
T ss_pred             HHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHh
Confidence            3455556666666666666555554  24455667777777777777777777776654  2 44445556677777888


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHH
Q 044352          366 VDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLR  445 (544)
Q Consensus       366 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  445 (544)
                      .++|.++|+...+. .+.+......+...|.-.++.+-|+.+|+++.+. |. .+++.|..++-++.-.+++|-++.-|+
T Consensus       306 ~~~a~~lYk~vlk~-~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqm-G~-~speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  306 QEDALQLYKLVLKL-HPINVEAIACIAVGYFYDNNPEMALRYYRRILQM-GA-QSPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HHHHHHHHHHHHhc-CCccceeeeeeeeccccCCChHHHHHHHHHHHHh-cC-CChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            88888888888876 2456667777777788888899999999998886 64 477788888888888889998888887


Q ss_pred             hCC---CCCC--hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          446 QVP---MYVT--NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       446 ~~~---~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      ++.   ..|+  .+.|.++.......||+..|.+.|+-++..+|++..+++.|+-+-.+.|+.++|..++......
T Consensus       383 RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  383 RALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            763   2233  5689999888999999999999999999999999999999999999999999999999887654

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

Probab=99.45  E-value=1.8e-09  Score=103.47  Aligned_cols=125  Identities=12%  Similarity=0.084  Sum_probs=72.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhCCCCCC-HhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhc
Q 044352          218 NAIIASYARRGDSNAAFAFFSRMTAEGFVPD-LVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGL  296 (544)
Q Consensus       218 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  296 (544)
                      ..+...|...|++++|++++++..++  .|+ +..|..-.+.+-+.|++.+|.+.++.....+ .-|...-+.....+.+
T Consensus       198 ~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LR  274 (517)
T PF12569_consen  198 YFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLR  274 (517)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHH
Confidence            44455566667777777777666665  343 5556666666666777777777666666544 3455555555556666


Q ss_pred             cCchHHHHHHHHHHHHcCCCCCHH--------HHHHHHHHHHhcCCHHHHHHHHHhc
Q 044352          297 TGSIQIGREIHALVCRMGLHIDVF--------TGSALIDMYSKCGSLKDARTLFEIT  345 (544)
Q Consensus       297 ~~~~~~a~~~~~~~~~~~~~~~~~--------~~~~l~~~~~~~~~~~~A~~~~~~~  345 (544)
                      .|++++|..++....+.+..|...        .......+|.+.|++..|+..|..+
T Consensus       275 a~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v  331 (517)
T PF12569_consen  275 AGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAV  331 (517)
T ss_pred             CCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            666666666666665554322111        1123455666666666666555433

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 [], [].

>PRK12370 invasion protein regulator; Provisional

Probab=99.45  E-value=6.3e-11  Score=117.48  Aligned_cols=243  Identities=11%  Similarity=0.016  Sum_probs=138.3

Q ss_pred             ChHHHHHHhccCC---CCCchhHHHHHHHHH---------hcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCCh
Q 044352           62 DVNSARLVFDKIP---NPNVFMLNWMVMASA---------FTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDI  129 (544)
Q Consensus        62 ~~~~A~~~~~~~~---~~~~~~~~~l~~~~~---------~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~  129 (544)
                      ++++|+..|++..   |.+...|..+..++.         ..+++++|...+++..+.+. -+...+..+...+...|++
T Consensus       276 ~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP-~~~~a~~~lg~~~~~~g~~  354 (553)
T PRK12370        276 SLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDH-NNPQALGLLGLINTIHSEY  354 (553)
T ss_pred             HHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHccCH
Confidence            3456666666655   233344444444332         22346777777777776431 1445566666666677777


Q ss_pred             HHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCCh---hhHHHHHHHHhccCChhHHHHHHHHHH
Q 044352          130 KKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDV---VSWTSMISGYCNVSKVDEAVVLFERMK  206 (544)
Q Consensus       130 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~  206 (544)
                      ++|...++++.+.+ |.+...+..+..++...|++++|...+++..+.++   ..+..++..+...|++++|...+++..
T Consensus       355 ~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l  433 (553)
T PRK12370        355 IVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDELR  433 (553)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            77777777777765 45566666677777777777777777777654222   122333444555677777777777766


Q ss_pred             HcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCC-HhHHHHHHHHHHcCCCHHHHHHHHHHHHHcC-CCCCH
Q 044352          207 LEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPD-LVTWNAMISGFAQSKRENEALKLFKGMLVSG-IKPNN  284 (544)
Q Consensus       207 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~  284 (544)
                      ....+-+...+..+..++...|++++|...+.++...  .|+ ....+.+...|...|  ++|...++.+.+.. ..+..
T Consensus       434 ~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~  509 (553)
T PRK12370        434 SQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNN  509 (553)
T ss_pred             HhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcC
Confidence            5431223444566666777778888887777776544  333 333444555566666  36666666655421 12222


Q ss_pred             HHHHHHHHHhhccCchHHHHHHHHHHHHc
Q 044352          285 VTVTGVLQAGGLTGSIQIGREIHALVCRM  313 (544)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  313 (544)
                      ..+  .-..+.-.|+.+.+... +++.+.
T Consensus       510 ~~~--~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        510 PGL--LPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             chH--HHHHHHHHhhhHHHHHH-HHhhcc
Confidence            222  33334445555555544 555544

>PRK12370 invasion protein regulator; Provisional

Probab=99.42  E-value=2.6e-10  Score=113.12  Aligned_cols=262  Identities=12%  Similarity=0.056  Sum_probs=180.8

Q ss_pred             CCHhHHHHHHHHHHc-----CCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhh---------ccCchHHHHHHHHHHH
Q 044352          247 PDLVTWNAMISGFAQ-----SKRENEALKLFKGMLVSGIKPN-NVTVTGVLQAGG---------LTGSIQIGREIHALVC  311 (544)
Q Consensus       247 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~  311 (544)
                      .+...|...+.+...     .+.+++|...|++.++.  .|+ ...+..+..++.         ..+++++|...++++.
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            344545454444211     23457888888888865  444 334444433322         3345788999999988


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHH
Q 044352          312 RMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRAN-EVT  387 (544)
Q Consensus       312 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~  387 (544)
                      +.+ +.+..++..+..++...|++++|...|++...   .+...+..+..++...|++++|...+++..+.  .|+ ...
T Consensus       332 ~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~  408 (553)
T PRK12370        332 ELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAA  408 (553)
T ss_pred             hcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhh
Confidence            876 34677888888888899999999999988764   34567888889999999999999999999985  443 333


Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC-hhHHHHHHHHHhh
Q 044352          388 LISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVT-NSMAGAFRNGCNI  465 (544)
Q Consensus       388 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~  465 (544)
                      +..++..+...|++++|...++++... ..+.++..+..++.+|...|++++|...+.++. ..|+ ...+..+...|..
T Consensus       409 ~~~~~~~~~~~g~~eeA~~~~~~~l~~-~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~  487 (553)
T PRK12370        409 GITKLWITYYHTGIDDAIRLGDELRSQ-HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQ  487 (553)
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHHh-ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhc
Confidence            344455566789999999999998764 223345567778889999999999999998874 3343 3345555556666


Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          466 HGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       466 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .|  ++|...++.+++..-..+.....+..++.-.|+-+.+... +++.+.+
T Consensus       488 ~g--~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        488 NS--ERALPTIREFLESEQRIDNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             cH--HHHHHHHHHHHHHhhHhhcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            66  4788877777764422222222366677777888777776 7777654

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

Probab=99.40  E-value=1.1e-11  Score=105.49  Aligned_cols=235  Identities=11%  Similarity=-0.023  Sum_probs=168.2

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 044352          253 NAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKC  332 (544)
Q Consensus       253 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  332 (544)
                      +.+.++|.+.|.+.+|.+.++..+++  .|-+.||..+-++|.+..+...|..++.+-.+.- +.++.......+.+...
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHHHH
Confidence            34555566666666666666555544  4444555555556666666666666555555442 33444445566667777


Q ss_pred             CCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHH
Q 044352          333 GSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFR  409 (544)
Q Consensus       333 ~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  409 (544)
                      ++.++|.++++...+   .++.....+...|.-.++++-|+.+|++++..|+ -++..|..+.-+|...+++|-++.-|+
T Consensus       304 ~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            788888888876654   3555566666778888899999999999999874 477788888888889999999999888


Q ss_pred             HHHHHhCCCCc--hhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC
Q 044352          410 SMKERYGVKIS--KEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR  485 (544)
Q Consensus       410 ~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  485 (544)
                      +.... -..|+  .++|..+.......|++.-|.+.|+-..  ...+..++++++-.-.+.|++++|+.++..+....|.
T Consensus       383 RAlst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~  461 (478)
T KOG1129|consen  383 RALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPD  461 (478)
T ss_pred             HHHhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCcc
Confidence            88764 33333  5688888888889999999999998764  4445678899988888999999999999999998886


Q ss_pred             CchhHHH
Q 044352          486 KPDGFVM  492 (544)
Q Consensus       486 ~~~~~~~  492 (544)
                      -......
T Consensus       462 m~E~~~N  468 (478)
T KOG1129|consen  462 MAEVTTN  468 (478)
T ss_pred             ccccccc
Confidence            5544333

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

Probab=99.40  E-value=1.2e-08  Score=90.13  Aligned_cols=300  Identities=9%  Similarity=-0.051  Sum_probs=215.2

Q ss_pred             CCCHhhHHHHHHHHH--hcCChHHHHHHHHHhhhC-CCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHH-H
Q 044352          211 EPNQFTYNAIIASYA--RRGDSNAAFAFFSRMTAE-GFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNV-T  286 (544)
Q Consensus       211 ~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~  286 (544)
                      +|...+....+.+++  -.++...+...+-.+... -++.|+.....+..++...|+.++|+..|++....  .|+.. .
T Consensus       191 ~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~  268 (564)
T KOG1174|consen  191 PDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEA  268 (564)
T ss_pred             CCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--Chhhhhh
Confidence            344334343444333  344444444444443332 34667888899999999999999999999998743  44433 2


Q ss_pred             HHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc---cHHHHHHHHHHHHhc
Q 044352          287 VTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK---NVASWNAMIGCYGKH  363 (544)
Q Consensus       287 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~  363 (544)
                      .....-.+...|+.+....+...+.... ..+...|..-+......++++.|+.+-++..+.   ++..+-.-...+...
T Consensus       269 MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~  347 (564)
T KOG1174|consen  269 MDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIAL  347 (564)
T ss_pred             HHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhc
Confidence            3333344566778887777776665542 123333444444555678999999998877753   445565556778899


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHH-HHHH-hcCCHHHHH
Q 044352          364 GMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVV-DMLC-RSGRMVEAY  441 (544)
Q Consensus       364 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~g~~~~A~  441 (544)
                      |++++|.-.|+..... -+-+...|..++.+|...|.+.+|.-.-.....  -++.+..+..-++ ..+. .-..-++|.
T Consensus       348 ~R~~~A~IaFR~Aq~L-ap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~--~~~~sA~~LtL~g~~V~~~dp~~rEKAK  424 (564)
T KOG1174|consen  348 ERHTQAVIAFRTAQML-APYRLEIYRGLFHSYLAQKRFKEANALANWTIR--LFQNSARSLTLFGTLVLFPDPRMREKAK  424 (564)
T ss_pred             cchHHHHHHHHHHHhc-chhhHHHHHHHHHHHHhhchHHHHHHHHHHHHH--HhhcchhhhhhhcceeeccCchhHHHHH
Confidence            9999999999998884 234778999999999999999999988888776  3455666665553 2332 223457899


Q ss_pred             HHHHhCC-CCCC-hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          442 DLLRQVP-MYVT-NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       442 ~~~~~~~-~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .++++.. ..|+ ..+.+.++..+...|.++.++.++++.+...| +...+..|+..+...+.+++|.+.|..++..+
T Consensus       425 kf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~-D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  425 KFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFP-DVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             HHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhcc-ccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            9998864 5565 45677788889999999999999999999888 57889999999999999999999999887654

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

Probab=99.39  E-value=1.5e-08  Score=93.82  Aligned_cols=416  Identities=13%  Similarity=0.049  Sum_probs=246.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC
Q 044352           83 WMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCG  162 (544)
Q Consensus        83 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  162 (544)
                      +=+.-+...|++++|+....+++..+ +-+...+..-+.+.++.+.+++|+.+.+.-...  ..+...+..-+.+..+.+
T Consensus        17 t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrln   93 (652)
T KOG2376|consen   17 TDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLN   93 (652)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcc
Confidence            33556677889999999999999854 345566777777888999999998665432211  111111122344556789


Q ss_pred             CHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044352          163 LLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTA  242 (544)
Q Consensus       163 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  242 (544)
                      ..++|...++.+.+.+..+...-...+.+.|++++|+++|..+.+.+.+ +... ....++... +--..+. +.+... 
T Consensus        94 k~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d-d~d~-~~r~nl~a~-~a~l~~~-~~q~v~-  168 (652)
T KOG2376|consen   94 KLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD-DQDE-ERRANLLAV-AAALQVQ-LLQSVP-  168 (652)
T ss_pred             cHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc-hHHH-HHHHHHHHH-HHhhhHH-HHHhcc-
Confidence            9999999999776667667778888899999999999999999866532 2211 111111111 0001111 222222 


Q ss_pred             CCCCCCHhHHHH---HHHHHHcCCCHHHHHHHHHHHHHc-------CCCCCH-------HHHHHHHHHhhccCchHHHHH
Q 044352          243 EGFVPDLVTWNA---MISGFAQSKRENEALKLFKGMLVS-------GIKPNN-------VTVTGVLQAGGLTGSIQIGRE  305 (544)
Q Consensus       243 ~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~-------~~~~~l~~~~~~~~~~~~a~~  305 (544)
                        ..| ..+|..   ..-.++..|++.+|++++....+.       +-..+.       ..-..+..++...|+..+|..
T Consensus       169 --~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~  245 (652)
T KOG2376|consen  169 --EVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASS  245 (652)
T ss_pred             --CCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence              123 223333   345677899999999999988321       111111       122345556778999999999


Q ss_pred             HHHHHHHcCCCCCHH---HHHHHHHHHHhcCCH-H-HHHHHHHhcCCcc--------------HHHH-HHHHHHHHhcCC
Q 044352          306 IHALVCRMGLHIDVF---TGSALIDMYSKCGSL-K-DARTLFEITRIKN--------------VASW-NAMIGCYGKHGM  365 (544)
Q Consensus       306 ~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~-~-~A~~~~~~~~~~~--------------~~~~-~~l~~~~~~~g~  365 (544)
                      ++..+........+.   ..|.++. .....++ + .++..++......              .... +.++..|  .+.
T Consensus       246 iy~~~i~~~~~D~~~~Av~~NNLva-~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~--tnk  322 (652)
T KOG2376|consen  246 IYVDIIKRNPADEPSLAVAVNNLVA-LSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALF--TNK  322 (652)
T ss_pred             HHHHHHHhcCCCchHHHHHhcchhh-hccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH--hhh
Confidence            999999887443221   2222222 2211111 1 2223333222111              1111 2222222  233


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh--cCCchHHHHHHHHHHHHHhCCCCc-hhHHHHHHHHHHhcCCHHHHHH
Q 044352          366 VDSSIELFERMLEEGMRANEVTLISVLSACS--HGGLVEKGLEIFRSMKERYGVKIS-KEHYACVVDMLCRSGRMVEAYD  442 (544)
Q Consensus       366 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~  442 (544)
                      .+.+.++......  ..|... +..++..+.  +...+..+.+++....+  +.+.+ ..+....+......|++..|.+
T Consensus       323 ~~q~r~~~a~lp~--~~p~~~-~~~ll~~~t~~~~~~~~ka~e~L~~~~~--~~p~~s~~v~L~~aQl~is~gn~~~A~~  397 (652)
T KOG2376|consen  323 MDQVRELSASLPG--MSPESL-FPILLQEATKVREKKHKKAIELLLQFAD--GHPEKSKVVLLLRAQLKISQGNPEVALE  397 (652)
T ss_pred             HHHHHHHHHhCCc--cCchHH-HHHHHHHHHHHHHHHHhhhHHHHHHHhc--cCCchhHHHHHHHHHHHHhcCCHHHHHH
Confidence            3444444333222  233333 333333322  22357788888888766  33333 4556666778889999999999


Q ss_pred             HHH--------hCC-CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHc-------CCCCchhHHHHHHHHHhcCChHHH
Q 044352          443 LLR--------QVP-MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEM-------GLRKPDGFVMLSNICAADGEWHEA  506 (544)
Q Consensus       443 ~~~--------~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~p~~~~~~~~l~~~~~~~g~~~~A  506 (544)
                      ++.        .+. ..-.+.+...+...+.+.++.+.|..++.+++.-       .+.....+..++..-.+.|+-++|
T Consensus       398 il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea  477 (652)
T KOG2376|consen  398 ILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEA  477 (652)
T ss_pred             HHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHH
Confidence            998        443 2334555566666788888888888888887761       122334566667777788999999


Q ss_pred             HHHHHHHHhcC
Q 044352          507 ENLRKIMKEKN  517 (544)
Q Consensus       507 ~~~~~~~~~~~  517 (544)
                      ...++++.+.+
T Consensus       478 ~s~leel~k~n  488 (652)
T KOG2376|consen  478 SSLLEELVKFN  488 (652)
T ss_pred             HHHHHHHHHhC
Confidence            99999998854

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.38  E-value=6.4e-09  Score=95.22  Aligned_cols=432  Identities=12%  Similarity=-0.006  Sum_probs=217.3

Q ss_pred             HHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCH
Q 044352           19 LLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNF   94 (544)
Q Consensus        19 l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~   94 (544)
                      -.++....||++.|+..|.+++.. |++.. .|.....+|+..|++++|++--.+..   |.-+..|+....++.-.|++
T Consensus         8 kgnaa~s~~d~~~ai~~~t~ai~l~p~nhv-lySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen    8 KGNAAFSSGDFETAIRLFTEAIMLSPTNHV-LYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HHHhhcccccHHHHHHHHHHHHccCCCccc-hhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccH
Confidence            345666778888888888888888 77777 77777778888888888777655544   33455677777777777888


Q ss_pred             HHHHHHHHHHHhcccccC-HHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHH-----HHHHhCCCHHHHH
Q 044352           95 QEAIGYFSLMREFIYRCN-KFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALI-----DMYSKCGLLCSAR  168 (544)
Q Consensus        95 ~~A~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-----~~~~~~~~~~~A~  168 (544)
                      ++|+..|.+-++.  .|+ ...+..+..++    ..+.+.     +.   .-.++..+..+.     +.+...-.+..-+
T Consensus        87 ~eA~~ay~~GL~~--d~~n~~L~~gl~~a~----~~~~~~-----~~---~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l  152 (539)
T KOG0548|consen   87 EEAILAYSEGLEK--DPSNKQLKTGLAQAY----LEDYAA-----DQ---LFTKPYFHEKLANLPLTNYSLSDPAYVKIL  152 (539)
T ss_pred             HHHHHHHHHHhhc--CCchHHHHHhHHHhh----hHHHHh-----hh---hccCcHHHHHhhcChhhhhhhccHHHHHHH
Confidence            8888888777763  343 34455555544    111111     10   011222222221     1111111111111


Q ss_pred             HHHhhccCCChhhH------HHHHHHHhccCChhHHHHHHHHHHHcC-------CCCCHhhHHHHHHHHHhcCCh-HHHH
Q 044352          169 RVFHGMFERDVVSW------TSMISGYCNVSKVDEAVVLFERMKLEG-------LEPNQFTYNAIIASYARRGDS-NAAF  234 (544)
Q Consensus       169 ~~~~~~~~~~~~~~------~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~-~~a~  234 (544)
                      ..    .+.++...      ..++.+.......+.-     .+...|       ..|...    -....-..++. ++..
T Consensus       153 ~~----~~~~p~~l~~~l~d~r~m~a~~~l~~~~~~-----~~~~~~~~~~~~~~~p~~~----~~~~~~~~~d~~ee~~  219 (539)
T KOG0548|consen  153 EI----IQKNPTSLKLYLNDPRLMKADGQLKGVDEL-----LFYASGIEILASMAEPCKQ----EHNGFPIIEDNTEERR  219 (539)
T ss_pred             HH----hhcCcHhhhcccccHHHHHHHHHHhcCccc-----cccccccccCCCCCCcccc----cCCCCCccchhHHHHH
Confidence            11    11111111      1111111111000000     000000       001000    00000000000 0000


Q ss_pred             HHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcC
Q 044352          235 AFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMG  314 (544)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  314 (544)
                            .    ..-..-...+.+...+..+++.|++.+...++..  -+..-++....++...|.+......-....+.|
T Consensus       220 ------~----k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~g  287 (539)
T KOG0548|consen  220 ------V----KEKAHKEKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVG  287 (539)
T ss_pred             ------H----HHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHh
Confidence                  0    0011123445566666666666766666666543  233334444455555555555554444444433


Q ss_pred             CCCCHHHHH-------HHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-
Q 044352          315 LHIDVFTGS-------ALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEV-  386 (544)
Q Consensus       315 ~~~~~~~~~-------~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-  386 (544)
                      .. ...-|+       .+..+|.+.++++.++..|++...+...     -....+....++++...+...-  +.|... 
T Consensus       288 re-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~--~~pe~A~  359 (539)
T KOG0548|consen  288 RE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY--INPEKAE  359 (539)
T ss_pred             HH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh--hChhHHH
Confidence            21 111112       2334555566777777777664421100     0111222334444444443333  223221 


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHh
Q 044352          387 TLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCN  464 (544)
Q Consensus       387 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  464 (544)
                      -...-...+.+.|++..|+..|.+++.+  .|.|...|..-.-+|.+.|.+..|+.-.+...  .++....|..=+.++.
T Consensus       360 e~r~kGne~Fk~gdy~~Av~~YteAIkr--~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~  437 (539)
T KOG0548|consen  360 EEREKGNEAFKKGDYPEAVKHYTEAIKR--DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALR  437 (539)
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhc--CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence            1222244566778888888888887774  36667778888888888888888877766553  2333344544455666


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhc
Q 044352          465 IHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAAD  500 (544)
Q Consensus       465 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  500 (544)
                      ...++++|.+.|+++++.+|.+..+...+..+....
T Consensus       438 ~mk~ydkAleay~eale~dp~~~e~~~~~~rc~~a~  473 (539)
T KOG0548|consen  438 AMKEYDKALEAYQEALELDPSNAEAIDGYRRCVEAQ  473 (539)
T ss_pred             HHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHh
Confidence            667888888888888888888888877777777654

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.38  E-value=1.3e-10  Score=105.49  Aligned_cols=231  Identities=9%  Similarity=-0.076  Sum_probs=134.2

Q ss_pred             HHHcCCCHHHHHHHHHHHHHcC-CCCC--HHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 044352          258 GFAQSKRENEALKLFKGMLVSG-IKPN--NVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGS  334 (544)
Q Consensus       258 ~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  334 (544)
                      .....+..+.++..+.+++... ..|+  ...+......+...|+.+.|...|....+.. +.+...|+.+...+...|+
T Consensus        35 ~~~~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~  113 (296)
T PRK11189         35 PLQPTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGN  113 (296)
T ss_pred             ccCCchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCC
Confidence            3444566677777777777532 1222  2345566666777777778877777777765 3356777777777777788


Q ss_pred             HHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHH
Q 044352          335 LKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSM  411 (544)
Q Consensus       335 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  411 (544)
                      ++.|...|+...+   .+..+|..+..++...|++++|.+.+++..+.  .|+..........+...++.++|...+.+.
T Consensus       114 ~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~  191 (296)
T PRK11189        114 FDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQR  191 (296)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            8887777776653   23456677777777777788887777777764  343321122222234456777777777665


Q ss_pred             HHHhCCCCchhHHHHHHHHHHhcCCHHHH--HHHHHhC-C-----CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC
Q 044352          412 KERYGVKISKEHYACVVDMLCRSGRMVEA--YDLLRQV-P-----MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG  483 (544)
Q Consensus       412 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A--~~~~~~~-~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  483 (544)
                      ..  ..+++...+   ...+...|+..++  .+.+.+. .     .+....+|..++..+...|++++|+..|+++++.+
T Consensus       192 ~~--~~~~~~~~~---~~~~~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        192 YE--KLDKEQWGW---NIVEFYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             Hh--hCCccccHH---HHHHHHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            43  223322211   2222334444332  2222221 1     11123467777777777777777777777777777


Q ss_pred             CC-CchhHHHHHHH
Q 044352          484 LR-KPDGFVMLSNI  496 (544)
Q Consensus       484 p~-~~~~~~~l~~~  496 (544)
                      |. .......++..
T Consensus       267 ~~~~~e~~~~~~e~  280 (296)
T PRK11189        267 VYNFVEHRYALLEL  280 (296)
T ss_pred             CchHHHHHHHHHHH
Confidence            53 33333334333

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.38  E-value=1e-10  Score=103.55  Aligned_cols=192  Identities=14%  Similarity=0.032  Sum_probs=136.3

Q ss_pred             HHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhC
Q 044352           49 LKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVG  125 (544)
Q Consensus        49 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~  125 (544)
                      .+..++..+...|++++|...+++..   +.+...+..+...+...|++++|.+.+++..+.+ +.+...+..+...+..
T Consensus        33 ~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~  111 (234)
T TIGR02521        33 IRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLCQ  111 (234)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHH
Confidence            66777777777777777777777654   4445666777777777778888888777777643 2244556666677777


Q ss_pred             CCChHHHHHHHHHHHHcCC-CCChhHHHHHHHHHHhCCCHHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHH
Q 044352          126 LLDIKKGKQVHAVATQMGF-ENDVSVGNALIDMYSKCGLLCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVL  201 (544)
Q Consensus       126 ~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~  201 (544)
                      .|++++|...++...+... +.....+..+..++...|++++|...+++...   .+...+..+...+...|++++|...
T Consensus       112 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  191 (234)
T TIGR02521       112 QGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDARAY  191 (234)
T ss_pred             cccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHHHH
Confidence            7788888888777776431 22344566677777888888888888877754   2345677777888888888888888


Q ss_pred             HHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044352          202 FERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTA  242 (544)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  242 (544)
                      +++.... .+.+...+..+...+...|+.++|..+.+.+..
T Consensus       192 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       192 LERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            8887765 244556666677777788888888888777654

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.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.37  E-value=1e-08  Score=100.35  Aligned_cols=131  Identities=11%  Similarity=-0.014  Sum_probs=76.1

Q ss_pred             CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHH----HHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHH
Q 044352          384 NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYA----CVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAF  459 (544)
Q Consensus       384 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l  459 (544)
                      ....|........+.+.+..|.+...+...-.....+...|+    .+.+.++..|.++.|..-+.......+......-
T Consensus       966 ~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~evdEdi~gt~ 1045 (1238)
T KOG1127|consen  966 LCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWMEVDEDIRGTD 1045 (1238)
T ss_pred             hhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccchhHHHHHhhhh
Confidence            344555555555566666666665555432211122333333    3455667777787777666555433333322222


Q ss_pred             HHHHhhcCChHHHHHHHHHHHHcCCCCc---hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          460 RNGCNIHGRRDLAVTMGEEFFEMGLRKP---DGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       460 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      +. ..-.|+++++.+.|++++.+.-.+.   .....++......+..+.|...+=+...
T Consensus      1046 l~-lFfkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ 1103 (1238)
T KOG1127|consen 1046 LT-LFFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKS 1103 (1238)
T ss_pred             HH-HHHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHH
Confidence            21 2346789999999999998764433   3455566777778888888887655543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.34  E-value=6.2e-09  Score=87.95  Aligned_cols=316  Identities=10%  Similarity=0.006  Sum_probs=181.3

Q ss_pred             HHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHH-HHHhhCCC
Q 044352           52 KLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIV-LKACVGLL  127 (544)
Q Consensus        52 ~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l-l~~~~~~~  127 (544)
                      +.+..+.+..++++|++++..-.   +.+....+.+..+|....++..|-+.++++..  ..|...-|..- .+.+.+.+
T Consensus        15 aviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~q--l~P~~~qYrlY~AQSLY~A~   92 (459)
T KOG4340|consen   15 AVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQ--LHPELEQYRLYQAQSLYKAC   92 (459)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hChHHHHHHHHHHHHHHHhc
Confidence            34444455566666666665543   23444555666666666666666666666655  33444433322 23344556


Q ss_pred             ChHHHHHHHHHHHHcCCCCChhHHHHHH--HHHHhCCCHHHHHHHHhhccC-CChhhHHHHHHHHhccCChhHHHHHHHH
Q 044352          128 DIKKGKQVHAVATQMGFENDVSVGNALI--DMYSKCGLLCSARRVFHGMFE-RDVVSWTSMISGYCNVSKVDEAVVLFER  204 (544)
Q Consensus       128 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~  204 (544)
                      .+..|+++...|...   ++...-..-+  ...-..+++..+..+++..+. .+..+.+...-...+.|+++.|.+-|..
T Consensus        93 i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqa  169 (459)
T KOG4340|consen   93 IYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQA  169 (459)
T ss_pred             ccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHH
Confidence            666666666655432   1111111111  122345677777777777763 5555555555566677788888777777


Q ss_pred             HHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCC-------------C---------------HhHHHHHH
Q 044352          205 MKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVP-------------D---------------LVTWNAMI  256 (544)
Q Consensus       205 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-------------~---------------~~~~~~l~  256 (544)
                      ..+-+--.....|+..+ ++.+.++++.|++...++..+|+..             |               +..+|.-.
T Consensus       170 AlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKa  248 (459)
T KOG4340|consen  170 ALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKA  248 (459)
T ss_pred             HHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhh
Confidence            76654344455666444 3445677777877777777665421             1               11234344


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 044352          257 SGFAQSKRENEALKLFKGMLVS-GIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSL  335 (544)
Q Consensus       257 ~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  335 (544)
                      ..+.+.++++.|.+.+.+|.-+ ....|+.|...+.-. -..+++.....-+.-+.+.++ ....+|..++-.||+..-+
T Consensus       249 AIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyCKNeyf  326 (459)
T KOG4340|consen  249 AIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNP-FPPETFANLLLLYCKNEYF  326 (459)
T ss_pred             hhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCC-CChHHHHHHHHHHhhhHHH
Confidence            4567889999999888887532 234466666554432 234455566666666666653 4577888888899999889


Q ss_pred             HHHHHHHHhcCCc-----cHHHHHHHHHHHH-hcCChHHHHHHHHHH
Q 044352          336 KDARTLFEITRIK-----NVASWNAMIGCYG-KHGMVDSSIELFERM  376 (544)
Q Consensus       336 ~~A~~~~~~~~~~-----~~~~~~~l~~~~~-~~g~~~~A~~~~~~~  376 (544)
                      +.|-.++.+-...     +...|+.+ .++. ..-..++|.+-++.+
T Consensus       327 ~lAADvLAEn~~lTyk~L~~Yly~LL-daLIt~qT~pEea~KKL~~L  372 (459)
T KOG4340|consen  327 DLAADVLAENAHLTYKFLTPYLYDLL-DALITCQTAPEEAFKKLDGL  372 (459)
T ss_pred             hHHHHHHhhCcchhHHHhhHHHHHHH-HHHHhCCCCHHHHHHHHHHH
Confidence            9888888655432     23333332 3322 234555555554444

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

Probab=99.33  E-value=1.4e-08  Score=97.44  Aligned_cols=412  Identities=9%  Similarity=0.074  Sum_probs=229.7

Q ss_pred             HHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhC-----C
Q 044352           88 SAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKC-----G  162 (544)
Q Consensus        88 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~  162 (544)
                      +...|++++|++.++.-... +......+......+.+.|+.++|..++..+++.+ |.+..-|..+..+..-.     .
T Consensus        14 l~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~~~~   91 (517)
T PF12569_consen   14 LEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQLSDE   91 (517)
T ss_pred             HHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcccccc
Confidence            34455555555555443331 22122233444444555555555555555555554 33333334444433111     1


Q ss_pred             CHHHHHHHHhhccC--CChhhHHHHHHHHhccCChh-HHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHH
Q 044352          163 LLCSARRVFHGMFE--RDVVSWTSMISGYCNVSKVD-EAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSR  239 (544)
Q Consensus       163 ~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  239 (544)
                      +.+....+++++..  |...+...+.-.+.....+. .+...+..+...|+++   +|+.+-..|.......-..+++..
T Consensus        92 ~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~~~  168 (517)
T PF12569_consen   92 DVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESLVEE  168 (517)
T ss_pred             cHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHHHHH
Confidence            34444555554432  11111111111111111222 3344555566666543   344444555544444444444444


Q ss_pred             hhhC----C----------CCCCHh--HHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhhccCchHH
Q 044352          240 MTAE----G----------FVPDLV--TWNAMISGFAQSKRENEALKLFKGMLVSGIKPN-NVTVTGVLQAGGLTGSIQI  302 (544)
Q Consensus       240 ~~~~----~----------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~  302 (544)
                      ....    +          -+|+..  ++..+...|...|++++|++++++.+++  .|+ +..|..-.+.+-+.|++.+
T Consensus       169 ~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~  246 (517)
T PF12569_consen  169 YVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKE  246 (517)
T ss_pred             HHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHH
Confidence            4321    1          134443  4466678899999999999999999976  455 6678888899999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccH----------HHH--HHHHHHHHhcCChHHHH
Q 044352          303 GREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNV----------ASW--NAMIGCYGKHGMVDSSI  370 (544)
Q Consensus       303 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----------~~~--~~l~~~~~~~g~~~~A~  370 (544)
                      |...++....... .|..+-+..+..+.+.|++++|..++....+++.          ..|  .....+|.+.|++..|+
T Consensus       247 Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~AL  325 (517)
T PF12569_consen  247 AAEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLAL  325 (517)
T ss_pred             HHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            9999999998873 3777778888999999999999999988776541          133  34567899999999998


Q ss_pred             HHHHHHHHcC--C-------------CCCHHHHHHHHHHHhcCCc-------hHHHHHHHHHHHHHhCCCC---------
Q 044352          371 ELFERMLEEG--M-------------RANEVTLISVLSACSHGGL-------VEKGLEIFRSMKERYGVKI---------  419 (544)
Q Consensus       371 ~~~~~~~~~~--~-------------~~~~~~~~~l~~~~~~~~~-------~~~a~~~~~~~~~~~~~~~---------  419 (544)
                      ..|....+.-  +             +.+..+|.-++...-+...       ...|.+++-.+........         
T Consensus       326 k~~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ed~l~~~~~y~raa~~ai~iYl~l~d~~~~~~~~~~~~~~~  405 (517)
T PF12569_consen  326 KRFHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRWEDKLRSHPFYRRAAKGAIRIYLELHDKPEAKQGEEQEADNE  405 (517)
T ss_pred             HHHHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHhcCcccccccccccccc
Confidence            8877765530  1             1233344444443322211       2334445444433200000         


Q ss_pred             --chhHHHHHHHHH---HhcCCHHHHHHHHHh-----------C----C--CCCChhHHHHHHHHHhhcC-ChHHHHHHH
Q 044352          420 --SKEHYACVVDML---CRSGRMVEAYDLLRQ-----------V----P--MYVTNSMAGAFRNGCNIHG-RRDLAVTMG  476 (544)
Q Consensus       420 --~~~~~~~l~~~~---~~~g~~~~A~~~~~~-----------~----~--~~~~~~~~~~l~~~~~~~g-~~~~A~~~~  476 (544)
                        +..--..+..-.   .+...-+++...-.+           .    +  ..+|+..     .-+.+.. =.++|.+++
T Consensus       406 ~~~~~e~Kk~~kK~kK~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~Dp~G-----ekL~~t~dPLe~A~kfl  480 (517)
T PF12569_consen  406 NMSAAERKKAKKKAKKAAKKAKKEEAEKAAKKEPKKQQNKSKKKEKVEPKKKDDDPLG-----EKLLKTEDPLEEAMKFL  480 (517)
T ss_pred             cCChHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhhhccccccccccCCcCCCCccH-----HHHhcCCcHHHHHHHHH
Confidence              000001111100   111111222211100           0    1  1222221     1223333 478899999


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHH
Q 044352          477 EEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKI  512 (544)
Q Consensus       477 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  512 (544)
                      +-+.+..|++..+|..-..+|.+.|++--|++.+.+
T Consensus       481 ~pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  481 KPLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             HHHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            999999999999999999999999999999988764

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 [], [].

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

Probab=99.33  E-value=9.8e-10  Score=105.97  Aligned_cols=360  Identities=14%  Similarity=0.112  Sum_probs=223.9

Q ss_pred             HHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCC
Q 044352           99 GYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERD  178 (544)
Q Consensus        99 ~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  178 (544)
                      .++-.+...|+.|+..||..++.-|+..|+.+.|- +|.-|.-..++.+...++.++......++.+.+.       .|.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            35667778899999999999999999999999998 9998888888888889999998888888877665       677


Q ss_pred             hhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhh-CCCCCCHhHHHHHHH
Q 044352          179 VVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTA-EGFVPDLVTWNAMIS  257 (544)
Q Consensus       179 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~  257 (544)
                      ..+|..+..+|...||... ++..++           ....+...+...|.-.....++..+.- .+..||..+   .+.
T Consensus        83 aDtyt~Ll~ayr~hGDli~-fe~veq-----------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n---~il  147 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLIL-FEVVEQ-----------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN---AIL  147 (1088)
T ss_pred             hhHHHHHHHHHHhccchHH-HHHHHH-----------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH---HHH
Confidence            8899999999999999776 222222           122345566667766666666655432 233455433   444


Q ss_pred             HHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 044352          258 GFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKD  337 (544)
Q Consensus       258 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  337 (544)
                      .....|-++.+++++..+....-. .+..+  +++-+....  ...+++........-.+++.++..++..-...|+.+.
T Consensus       148 llv~eglwaqllkll~~~Pvsa~~-~p~~v--fLrqnv~~n--tpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~  222 (1088)
T KOG4318|consen  148 LLVLEGLWAQLLKLLAKVPVSAWN-APFQV--FLRQNVVDN--TPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDG  222 (1088)
T ss_pred             HHHHHHHHHHHHHHHhhCCccccc-chHHH--HHHHhccCC--chHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhh
Confidence            555667788888877665432111 11111  233333222  2233333332222124788888888888888888888


Q ss_pred             HHHHHHhcCCccH----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Q 044352          338 ARTLFEITRIKNV----ASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKE  413 (544)
Q Consensus       338 A~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  413 (544)
                      |..++..|.+.+.    .-|..|+.+   .++...+..++..|.+.|+.|+..|+...+..+..+|....+.+       
T Consensus       223 Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e-------  292 (1088)
T KOG4318|consen  223 AKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEE-------  292 (1088)
T ss_pred             HHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhccc-------
Confidence            8888888886432    233344333   77888888888888888888888888887777777554222211       


Q ss_pred             HhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHh---------CC------CCCChhHHHHHHHHHhhcCChHHHHHHHHH
Q 044352          414 RYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQ---------VP------MYVTNSMAGAFRNGCNIHGRRDLAVTMGEE  478 (544)
Q Consensus       414 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~---------~~------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  478 (544)
                        +.+.+ ..+.+-+..-.-.|  ..|.+.+++         .+      .......| .+..-...+|..++.+++-..
T Consensus       293 --~sq~~-hg~tAavrsaa~rg--~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiw-s~c~~l~hQgk~e~veqlvg~  366 (1088)
T KOG4318|consen  293 --GSQLA-HGFTAAVRSAACRG--LLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIW-SMCEKLRHQGKGEEVEQLVGQ  366 (1088)
T ss_pred             --ccchh-hhhhHHHHHHHhcc--cHhHHHHHHHHHHHHHHHhhHHHHhccccchHHH-HHHHHHHHcCCCchHHHHHhh
Confidence              22222 22222222222222  222222221         11      11112233 333344457888888887777


Q ss_pred             HHH----cCCCCchhHHHHHHHHHhcCC
Q 044352          479 FFE----MGLRKPDGFVMLSNICAADGE  502 (544)
Q Consensus       479 ~~~----~~p~~~~~~~~l~~~~~~~g~  502 (544)
                      +..    +.|.+..++..+..-|.+.-+
T Consensus       367 l~npt~r~s~~~V~a~~~~lrqyFrr~e  394 (1088)
T KOG4318|consen  367 LLNPTLRDSGQNVDAFGALLRQYFRRIE  394 (1088)
T ss_pred             hcCCccccCcchHHHHHHHHHHHHHHHH
Confidence            654    446677777777777766533

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.31  E-value=2.2e-09  Score=97.47  Aligned_cols=214  Identities=16%  Similarity=0.058  Sum_probs=142.5

Q ss_pred             CchHHHHHHHHHHHHcC-CC--CCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHH
Q 044352          298 GSIQIGREIHALVCRMG-LH--IDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIE  371 (544)
Q Consensus       298 ~~~~~a~~~~~~~~~~~-~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~  371 (544)
                      +..+.+..-+.++.... ..  .....+......+...|+.++|...|++...   .++..|+.+...+...|++++|..
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            45556666666666432 11  2245677777788888999999888887653   356788888888889999999999


Q ss_pred             HHHHHHHcCCCC-CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCC
Q 044352          372 LFERMLEEGMRA-NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMY  450 (544)
Q Consensus       372 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  450 (544)
                      .|++.++.  .| +..++..+..++...|++++|.+.+++..+.   .|+..........+...+++++|.+.+.+....
T Consensus       120 ~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        120 AFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            99888874  44 4567777888888889999999998888764   333322112222344567888888888654311


Q ss_pred             CChhHHHHHHHHHhhcCChHHHHHHHHHHH-------HcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 044352          451 VTNSMAGAFRNGCNIHGRRDLAVTMGEEFF-------EMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNV  518 (544)
Q Consensus       451 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  518 (544)
                      .++..|. ........|+..++ ..++.+.       +++|+.+.+|..+|.++.+.|++++|+..|+++++.++
T Consensus       195 ~~~~~~~-~~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        195 LDKEQWG-WNIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             CCccccH-HHHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            1222222 12233334554433 2333333       45566778889999999999999999999988887654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.28  E-value=2.1e-08  Score=84.84  Aligned_cols=416  Identities=13%  Similarity=0.035  Sum_probs=261.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHH-HHHHHHH
Q 044352           81 LNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGN-ALIDMYS  159 (544)
Q Consensus        81 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~  159 (544)
                      +.+++.-+.+..+++.|++++..-.+++. .+....+.+..+|....++..|...++++...  .|...-|. --...+-
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p-~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSP-RSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHH
Confidence            56667777888899999999998888642 26667777888888999999999999998876  34444332 2345566


Q ss_pred             hCCCHHHHHHHHhhccCCC-hhh--HHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHH
Q 044352          160 KCGLLCSARRVFHGMFERD-VVS--WTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAF  236 (544)
Q Consensus       160 ~~~~~~~A~~~~~~~~~~~-~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  236 (544)
                      +.+.+..|+++...+...+ ...  ...-.......+++..+..++++....   .+..+.+.......+.|+++.|.+-
T Consensus        90 ~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e---n~Ad~~in~gCllykegqyEaAvqk  166 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE---NEADGQINLGCLLYKEGQYEAAVQK  166 (459)
T ss_pred             HhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCC---CccchhccchheeeccccHHHHHHH
Confidence            7899999999998887642 221  111223345678888999988887532   2444555566666789999999999


Q ss_pred             HHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCC
Q 044352          237 FSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLH  316 (544)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (544)
                      |+...+-+--.....|+.. -+..+.++++.|+++..+++++|++..+..-..+..--...+.+.....+.    ..   
T Consensus       167 FqaAlqvsGyqpllAYniA-LaHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh----~S---  238 (459)
T KOG4340|consen  167 FQAALQVSGYQPLLAYNLA-LAHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLH----QS---  238 (459)
T ss_pred             HHHHHhhcCCCchhHHHHH-HHHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHH----HH---
Confidence            9998776434455677754 456688999999999999999886543221000000000000000000000    00   


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc-----cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 044352          317 IDVFTGSALIDMYSKCGSLKDARTLFEITRIK-----NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISV  391 (544)
Q Consensus       317 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  391 (544)
                      .-...++.-...+.+.++++.|.+.+-.|+.+     |+++...+.-.- ..+++....+-+.-++... +....||..+
T Consensus       239 al~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANl  316 (459)
T KOG4340|consen  239 ALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQN-PFPPETFANL  316 (459)
T ss_pred             HHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcC-CCChHHHHHH
Confidence            01335555666778899999999999998853     666665554322 2456666677677777653 3467799999


Q ss_pred             HHHHhcCCchHHHHHHHHHHHHHhCCC-CchhHHHHHHHHHHh-cCCHHHHHHHHHhCCCCCChhHHHHHHHHH--hhcC
Q 044352          392 LSACSHGGLVEKGLEIFRSMKERYGVK-ISKEHYACVVDMLCR-SGRMVEAYDLLRQVPMYVTNSMAGAFRNGC--NIHG  467 (544)
Q Consensus       392 ~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~--~~~g  467 (544)
                      +-.||+..-++.|-.++.+-... ... .+... ..++.++.- .-..++|.+-++.+............+..-  ...+
T Consensus       317 LllyCKNeyf~lAADvLAEn~~l-Tyk~L~~Yl-y~LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~vQe~r~~~  394 (459)
T KOG4340|consen  317 LLLYCKNEYFDLAADVLAENAHL-TYKFLTPYL-YDLLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQVQEARHNR  394 (459)
T ss_pred             HHHHhhhHHHhHHHHHHhhCcch-hHHHhhHHH-HHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            99999999999888887543211 011 11222 234444443 345666666655442100000111111111  1111


Q ss_pred             ---ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          468 ---RRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       468 ---~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                         ....|++-|++.+++--   .+....++.|.+..++.-+.++|+.-.+-.
T Consensus       395 dd~a~R~ai~~Yd~~LE~YL---PVlMa~AkiyW~~~Dy~~vEk~Fr~SvefC  444 (459)
T KOG4340|consen  395 DDEAIRKAVNEYDETLEKYL---PVLMAQAKIYWNLEDYPMVEKIFRKSVEFC  444 (459)
T ss_pred             cHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhccccccHHHHHHHHHHHhhh
Confidence               23445566666666652   367778899999999999999998876654

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

Probab=99.27  E-value=2.4e-07  Score=89.25  Aligned_cols=349  Identities=11%  Similarity=0.088  Sum_probs=195.9

Q ss_pred             hhccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCCC-----------CCc-hhHHHHHHHHHh
Q 044352           23 CMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPN-----------PNV-FMLNWMVMASAF   90 (544)
Q Consensus        23 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----------~~~-~~~~~l~~~~~~   90 (544)
                      |.-.|+.+.|-+-.+.+..    .. +|..+++++.+..+.+-|.-++..|..           .|. ..=-.+......
T Consensus       738 yvtiG~MD~AfksI~~IkS----~~-vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvLAie  812 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIKS----DS-VWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVLAIE  812 (1416)
T ss_pred             EEEeccHHHHHHHHHHHhh----hH-HHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHHHHH
Confidence            4456777766655544433    34 788888888888888877777766641           111 222222333456


Q ss_pred             cCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHH
Q 044352           91 TGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRV  170 (544)
Q Consensus        91 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  170 (544)
                      .|..++|+.+|++..+         |..+-+.|-..|.+++|.++-+.-.+..+   ..+|......+-..++.+.|++.
T Consensus       813 LgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~Aley  880 (1416)
T KOG3617|consen  813 LGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEY  880 (1416)
T ss_pred             HhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHH
Confidence            7888888888888876         33444556678888888887765443322   23455555666667888888888


Q ss_pred             HhhccC-----------------------CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc
Q 044352          171 FHGMFE-----------------------RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARR  227 (544)
Q Consensus       171 ~~~~~~-----------------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  227 (544)
                      |++...                       +|...|.-....+-..|+.+.|+.+|...++         |-.+++..+-.
T Consensus       881 yEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~q  951 (1416)
T KOG3617|consen  881 YEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQ  951 (1416)
T ss_pred             HHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeec
Confidence            876622                       2333444444444556666666666665542         34455555666


Q ss_pred             CChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcC--CCC--CHHHHHHHHHHhhccC--chH
Q 044352          228 GDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSG--IKP--NNVTVTGVLQAGGLTG--SIQ  301 (544)
Q Consensus       228 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l~~~~~~~~--~~~  301 (544)
                      |+.++|-++-++      ..|......|.+.|-..|++.+|+.+|.+...-.  +..  ....-..+...+...+  +.-
T Consensus       952 Gk~~kAa~iA~e------sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqafsnAIRlcKEnd~~d~L~nlal~s~~~d~v 1025 (1416)
T KOG3617|consen  952 GKTDKAARIAEE------SGDKAACYHLARMYENDGDVVKAVKFFTRAQAFSNAIRLCKENDMKDRLANLALMSGGSDLV 1025 (1416)
T ss_pred             cCchHHHHHHHh------cccHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhhcCchhHH
Confidence            777777666554      3456666778888888888888888887764210  000  0000011112222222  222


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcC--------------CccHHHHHHHHHHHHhcCChH
Q 044352          302 IGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITR--------------IKNVASWNAMIGCYGKHGMVD  367 (544)
Q Consensus       302 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--------------~~~~~~~~~l~~~~~~~g~~~  367 (544)
                      .|-++|++.   |.     -+...+..|.+.|.+.+|+++-=.-.              ..|+...+.-...++...+++
T Consensus      1026 ~aArYyEe~---g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qye 1097 (1416)
T KOG3617|consen 1026 SAARYYEEL---GG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYE 1097 (1416)
T ss_pred             HHHHHHHHc---ch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHH
Confidence            333334332   11     12233445667777666665421111              134555555555555555555


Q ss_pred             HHHHHHHHHHHc----------C----------------CCCCH----HHHHHHHHHHhcCCchHHHHHHHHHH
Q 044352          368 SSIELFERMLEE----------G----------------MRANE----VTLISVLSACSHGGLVEKGLEIFRSM  411 (544)
Q Consensus       368 ~A~~~~~~~~~~----------~----------------~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~  411 (544)
                      +|..++-...+.          +                -.|+.    ..+..+...|.++|.+..|.+-|.+.
T Consensus      1098 kAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQA 1171 (1416)
T KOG3617|consen 1098 KAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQA 1171 (1416)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhhh
Confidence            555544332210          0                12222    35666777888888888888777665

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.27  E-value=4.7e-08  Score=84.41  Aligned_cols=313  Identities=14%  Similarity=0.060  Sum_probs=170.1

Q ss_pred             HHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHH---HHHhccCChhHHHHHHHHHHHcCCCCCHhhH-HHHHHHHHhc
Q 044352          152 NALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMI---SGYCNVSKVDEAVVLFERMKLEGLEPNQFTY-NAIIASYARR  227 (544)
Q Consensus       152 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~  227 (544)
                      .-+...+...|++..|+..|....+.|+..|.++.   ..|...|+...|+.-+.+.++.  +||-..- ..-...+.+.
T Consensus        42 lElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~  119 (504)
T KOG0624|consen   42 LELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQ  119 (504)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhc
Confidence            34556667778888888888888887777776664   4677778888888777777765  5654322 2233456778


Q ss_pred             CChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHH
Q 044352          228 GDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIH  307 (544)
Q Consensus       228 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  307 (544)
                      |.+++|..=|+...+.  .|+..+-   ..++.+.-..++-.                .....+..+...||...++...
T Consensus       120 Gele~A~~DF~~vl~~--~~s~~~~---~eaqskl~~~~e~~----------------~l~~ql~s~~~~GD~~~ai~~i  178 (504)
T KOG0624|consen  120 GELEQAEADFDQVLQH--EPSNGLV---LEAQSKLALIQEHW----------------VLVQQLKSASGSGDCQNAIEMI  178 (504)
T ss_pred             ccHHHHHHHHHHHHhc--CCCcchh---HHHHHHHHhHHHHH----------------HHHHHHHHHhcCCchhhHHHHH
Confidence            8888888888888766  3322110   01111100011111                1112222333445555555555


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHh---cCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 044352          308 ALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEI---TRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRAN  384 (544)
Q Consensus       308 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  384 (544)
                      ..+.+.. +.+...+..-..+|...|++..|+.-++.   +...+......+-..+...|+.+.++...++-++  +.|+
T Consensus       179 ~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpd  255 (504)
T KOG0624|consen  179 THLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPD  255 (504)
T ss_pred             HHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcc
Confidence            5555543 33455555555556666666655544432   2234444444555555555665555555555554  2343


Q ss_pred             HHHHHH-------H------HHHHhcCCchHHHHHHHHHHHHHhCCCCc-----hhHHHHHHHHHHhcCCHHHHHHHHHh
Q 044352          385 EVTLIS-------V------LSACSHGGLVEKGLEIFRSMKERYGVKIS-----KEHYACVVDMLCRSGRMVEAYDLLRQ  446 (544)
Q Consensus       385 ~~~~~~-------l------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~  446 (544)
                      ......       +      +......++|.++++..+...+.   .|.     ...+..+-.++...|++.+|++...+
T Consensus       256 HK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~---ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~e  332 (504)
T KOG0624|consen  256 HKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN---EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKE  332 (504)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc---CCcccceeeeeeheeeecccccCCHHHHHHHHHH
Confidence            321110       0      11223455666666666665543   222     12233344555566677777766666


Q ss_pred             CC-CCC-ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHH
Q 044352          447 VP-MYV-TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVML  493 (544)
Q Consensus       447 ~~-~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  493 (544)
                      +. ..| |..++..-+.+|.-...++.|+.-|+.+.+.+++|..+-..+
T Consensus       333 vL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~reGl  381 (504)
T KOG0624|consen  333 VLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRAREGL  381 (504)
T ss_pred             HHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHHHH
Confidence            53 233 355566666666666677777777777777777665554443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.26  E-value=1.7e-08  Score=92.43  Aligned_cols=414  Identities=14%  Similarity=0.088  Sum_probs=256.5

Q ss_pred             HHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccC-HHHHHHHHHHhhCCCCh
Q 044352           54 VGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCN-KFTFSIVLKACVGLLDI  129 (544)
Q Consensus        54 ~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~  129 (544)
                      +.+....|+++.|+.+|-..+   |+|...|..-..+|+..|++++|++--.+.++  +.|+ ...|+....++...|++
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccH
Confidence            455567899999999998876   66777788888899999999999888777776  4565 34788888888899999


Q ss_pred             HHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHH-HHHhhccCCChhhHHHHH-----HHHhccCChhHHHHHHH
Q 044352          130 KKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSAR-RVFHGMFERDVVSWTSMI-----SGYCNVSKVDEAVVLFE  203 (544)
Q Consensus       130 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~-~~~~~~~~~~~~~~~~l~-----~~~~~~~~~~~a~~~~~  203 (544)
                      ++|..-|.+-++.. +.+...+..+..++    ..+.+. +.|     .++..|..+.     +.+...-.+..   ++.
T Consensus        87 ~eA~~ay~~GL~~d-~~n~~L~~gl~~a~----~~~~~~~~~~-----~~p~~~~~l~~~p~t~~~~~~~~~~~---~l~  153 (539)
T KOG0548|consen   87 EEAILAYSEGLEKD-PSNKQLKTGLAQAY----LEDYAADQLF-----TKPYFHEKLANLPLTNYSLSDPAYVK---ILE  153 (539)
T ss_pred             HHHHHHHHHHhhcC-CchHHHHHhHHHhh----hHHHHhhhhc-----cCcHHHHHhhcChhhhhhhccHHHHH---HHH
Confidence            99999998888774 55666677777766    111111 111     1122222211     11111111111   111


Q ss_pred             HHHHcCCCCCH-hhH---HHHHHHHHhcCChHHHHHHHHHhhhCC-------CCCCHhHHHHHHHHHHcCCCHHHHHHHH
Q 044352          204 RMKLEGLEPNQ-FTY---NAIIASYARRGDSNAAFAFFSRMTAEG-------FVPDLVTWNAMISGFAQSKRENEALKLF  272 (544)
Q Consensus       204 ~~~~~~~~~~~-~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~  272 (544)
                      .+. .  .|+. ..|   ..++.+.......+.-     .....|       ..|.    .......-..++..+-.+  
T Consensus       154 ~~~-~--~p~~l~~~l~d~r~m~a~~~l~~~~~~-----~~~~~~~~~~~~~~~p~----~~~~~~~~~~~d~~ee~~--  219 (539)
T KOG0548|consen  154 IIQ-K--NPTSLKLYLNDPRLMKADGQLKGVDEL-----LFYASGIEILASMAEPC----KQEHNGFPIIEDNTEERR--  219 (539)
T ss_pred             Hhh-c--CcHhhhcccccHHHHHHHHHHhcCccc-----cccccccccCCCCCCcc----cccCCCCCccchhHHHHH--
Confidence            111 1  1111 000   1111111110000000     000111       1111    000000000000000000  


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHH-
Q 044352          273 KGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVA-  351 (544)
Q Consensus       273 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-  351 (544)
                             ..--..-...+..+.....+++.+.+.+....+..  .+...++....+|...|.+..+...-+...+.+.. 
T Consensus       220 -------~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~  290 (539)
T KOG0548|consen  220 -------VKEKAHKEKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGREL  290 (539)
T ss_pred             -------HHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHH
Confidence                   01112234567777888889999999999888876  46666777888899999888887776655543221 


Q ss_pred             ---------HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCch-
Q 044352          352 ---------SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISK-  421 (544)
Q Consensus       352 ---------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-  421 (544)
                               .+..+..+|.+.++++.++..|++.+.....|+..         .+....+++........-   +.|.. 
T Consensus       291 rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a~---~~pe~A  358 (539)
T KOG0548|consen  291 RADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKALKEAERKAY---INPEKA  358 (539)
T ss_pred             HHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHHHHHHHHHh---hChhHH
Confidence                     22234446777889999999999977754343321         223344444444444322   23332 


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHh
Q 044352          422 EHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAA  499 (544)
Q Consensus       422 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  499 (544)
                      .-...-+..+.+.|++..|+..|.++.  .+.|...|.+.+.+|.+.|.+..|+.-.+..++++|+....|..-+.++..
T Consensus       359 ~e~r~kGne~Fk~gdy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~  438 (539)
T KOG0548|consen  359 EEEREKGNEAFKKGDYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRA  438 (539)
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHH
Confidence            223334777889999999999999875  556778899999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHhcC
Q 044352          500 DGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       500 ~g~~~~A~~~~~~~~~~~  517 (544)
                      ..+|++|.+.|.+.++.+
T Consensus       439 mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  439 MKEYDKALEAYQEALELD  456 (539)
T ss_pred             HHHHHHHHHHHHHHHhcC
Confidence            999999999999988766

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

Probab=99.26  E-value=1.2e-06  Score=86.47  Aligned_cols=142  Identities=13%  Similarity=0.183  Sum_probs=104.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 044352          350 VASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVD  429 (544)
Q Consensus       350 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  429 (544)
                      +..|..+..+-.+.|...+|++-|-+      ..|+..|.-++..+.+.|.|++-..++....++ .-.|..+  ..++-
T Consensus      1104 p~vWsqlakAQL~~~~v~dAieSyik------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~id--~eLi~ 1174 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIK------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYID--SELIF 1174 (1666)
T ss_pred             hHHHHHHHHHHHhcCchHHHHHHHHh------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccch--HHHHH
Confidence            45688888888888888888776644      236677889999999999999999998888776 5455543  46788


Q ss_pred             HHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHH
Q 044352          430 MLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENL  509 (544)
Q Consensus       430 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  509 (544)
                      +|++.++..+-.+++.    .|+......++.-|...|.++.|.-+|..        ..-|..|+..+...|++..|.+.
T Consensus      1175 AyAkt~rl~elE~fi~----gpN~A~i~~vGdrcf~~~~y~aAkl~y~~--------vSN~a~La~TLV~LgeyQ~AVD~ 1242 (1666)
T KOG0985|consen 1175 AYAKTNRLTELEEFIA----GPNVANIQQVGDRCFEEKMYEAAKLLYSN--------VSNFAKLASTLVYLGEYQGAVDA 1242 (1666)
T ss_pred             HHHHhchHHHHHHHhc----CCCchhHHHHhHHHhhhhhhHHHHHHHHH--------hhhHHHHHHHHHHHHHHHHHHHH
Confidence            8999998888776654    46666677777777788888887777653        35566777777777777777665


Q ss_pred             HHH
Q 044352          510 RKI  512 (544)
Q Consensus       510 ~~~  512 (544)
                      -++
T Consensus      1243 aRK 1245 (1666)
T KOG0985|consen 1243 ARK 1245 (1666)
T ss_pred             hhh
Confidence            444

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.24  E-value=3.1e-07  Score=87.44  Aligned_cols=423  Identities=14%  Similarity=0.090  Sum_probs=234.8

Q ss_pred             HHHHHhhcCCChHHHHHHhccCCCCCch-hHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChH
Q 044352           52 KLVGVYAGCGDVNSARLVFDKIPNPNVF-MLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIK  130 (544)
Q Consensus        52 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~  130 (544)
                      ..+.+|....++++|+.+-+-...|... .-.+.++++...|+-++|-++-    ..    +-. -...|+.|.+.|.+.
T Consensus       562 ~aigmy~~lhkwde~i~lae~~~~p~~eklk~sy~q~l~dt~qd~ka~elk----~s----dgd-~laaiqlyika~~p~  632 (1636)
T KOG3616|consen  562 EAIGMYQELHKWDEAIALAEAKGHPALEKLKRSYLQALMDTGQDEKAAELK----ES----DGD-GLAAIQLYIKAGKPA  632 (1636)
T ss_pred             HHHHHHHHHHhHHHHHHHHHhcCChHHHHHHHHHHHHHHhcCchhhhhhhc----cc----cCc-cHHHHHHHHHcCCch
Confidence            3466777777788877776655533322 2334455555566655554331    10    111 123345556666665


Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCC--------------------------hh-hHH
Q 044352          131 KGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERD--------------------------VV-SWT  183 (544)
Q Consensus       131 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--------------------------~~-~~~  183 (544)
                      +|.+....-..  +..|..+...+..++.+..-+++|-.+|+++..++                          ++ .-.
T Consensus       633 ~a~~~a~n~~~--l~~de~il~~ia~alik~elydkagdlfeki~d~dkale~fkkgdaf~kaielarfafp~evv~lee  710 (1636)
T KOG3616|consen  633 KAARAALNDEE--LLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIELARFAFPEEVVKLEE  710 (1636)
T ss_pred             HHHHhhcCHHH--hhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHHHHhhCcHHHhhHHH
Confidence            55543221111  12333344444444444333444444444432211                          11 111


Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCC
Q 044352          184 SMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSK  263 (544)
Q Consensus       184 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  263 (544)
                      .....+.+.|+++.|...|-+..         .....+.+.....+|.+|+.+++.+..+  .....-|..+...|...|
T Consensus       711 ~wg~hl~~~~q~daainhfiea~---------~~~kaieaai~akew~kai~ildniqdq--k~~s~yy~~iadhyan~~  779 (1636)
T KOG3616|consen  711 AWGDHLEQIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISILDNIQDQ--KTASGYYGEIADHYANKG  779 (1636)
T ss_pred             HHhHHHHHHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhHHHHhhhh--ccccccchHHHHHhccch
Confidence            22333444555555555443321         1223455566677888888888888766  334455777788888899


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 044352          264 RENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFE  343 (544)
Q Consensus       264 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  343 (544)
                      +++.|.++|.+.-         .+...+..|.+.|.++.|.++-.+..  |.......|..-..-+-+.|++.+|.+++-
T Consensus       780 dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyi  848 (1636)
T KOG3616|consen  780 DFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYI  848 (1636)
T ss_pred             hHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeE
Confidence            9998888886532         24556777888888888887765543  334456667666777778888888888888


Q ss_pred             hcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhH
Q 044352          344 ITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEH  423 (544)
Q Consensus       344 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  423 (544)
                      .+..|+.     .|..|-+.|..+..+++.++-...   .-..|...+..-+...|++..|...|-+..          -
T Consensus       849 ti~~p~~-----aiqmydk~~~~ddmirlv~k~h~d---~l~dt~~~f~~e~e~~g~lkaae~~flea~----------d  910 (1636)
T KOG3616|consen  849 TIGEPDK-----AIQMYDKHGLDDDMIRLVEKHHGD---HLHDTHKHFAKELEAEGDLKAAEEHFLEAG----------D  910 (1636)
T ss_pred             EccCchH-----HHHHHHhhCcchHHHHHHHHhChh---hhhHHHHHHHHHHHhccChhHHHHHHHhhh----------h
Confidence            7777764     356677788888877776653221   112345556666777788777777665542          2


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCCCC-C-Chh--HHH------HHHHHH-------------hhcCChHHHHHHHHHHH
Q 044352          424 YACVVDMLCRSGRMVEAYDLLRQVPMY-V-TNS--MAG------AFRNGC-------------NIHGRRDLAVTMGEEFF  480 (544)
Q Consensus       424 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-~-~~~--~~~------~l~~~~-------------~~~g~~~~A~~~~~~~~  480 (544)
                      |.+-+.+|-..+.+++|.++-+.-... . ...  .|.      +....+             +..+-++-|..+.+-+.
T Consensus       911 ~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaksiggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~  990 (1636)
T KOG3616|consen  911 FKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKSIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAA  990 (1636)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHhhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhh
Confidence            444555566666666666665432200 0 000  010      011112             22333444433333222


Q ss_pred             HcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCceEEEec
Q 044352          481 EMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKR  530 (544)
Q Consensus       481 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  530 (544)
                      +  ..-+.+...++..+...|++++|-+.|-+.++.+.   -.+.|.+..
T Consensus       991 k--~k~~~vhlk~a~~ledegk~edaskhyveaiklnt---ynitwcqav 1035 (1636)
T KOG3616|consen  991 K--DKMGEVHLKLAMFLEDEGKFEDASKHYVEAIKLNT---YNITWCQAV 1035 (1636)
T ss_pred             h--ccCccchhHHhhhhhhccchhhhhHhhHHHhhccc---ccchhhhcc
Confidence            2  23456777788888888888888888777776553   234455443

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

Probab=99.23  E-value=4.1e-09  Score=85.93  Aligned_cols=193  Identities=13%  Similarity=0.058  Sum_probs=147.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCCcc---HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 044352          321 TGSALIDMYSKCGSLKDARTLFEITRIKN---VASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSH  397 (544)
Q Consensus       321 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  397 (544)
                      +...+.-.|...|+...|..-+++..+.|   ..+|..+...|.+.|..+.|.+-|++.+... +-+..+.|....-+|.
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~  115 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHh
Confidence            44556677888888888888888777543   3477778888888888888888888888752 3356678888888888


Q ss_pred             CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHH
Q 044352          398 GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTM  475 (544)
Q Consensus       398 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~  475 (544)
                      .|++++|...|++.........-..+|..++.+..+.|+.+.|.+.|++..  .+..+.....+.......|++-.|...
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~  195 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLY  195 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHH
Confidence            888888888888887753334445678888888888888888888888764  344466777777888888888888888


Q ss_pred             HHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          476 GEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       476 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      ++......+.+...+...+.+-.+.|+.+.|-++=.++.
T Consensus       196 ~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~  234 (250)
T COG3063         196 LERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQ  234 (250)
T ss_pred             HHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            888888777777777777788888888888777655444

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

Probab=99.23  E-value=2.1e-09  Score=95.89  Aligned_cols=254  Identities=11%  Similarity=-0.006  Sum_probs=138.2

Q ss_pred             HHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHH
Q 044352          224 YARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIG  303 (544)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  303 (544)
                      +.-.|++..++.-.+ .....-..+......+.+++...|+++.++.   ++.... .|....+..+...+....+.+.+
T Consensus        11 ~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~---ei~~~~-~~~l~av~~la~y~~~~~~~e~~   85 (290)
T PF04733_consen   11 QFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVLS---EIKKSS-SPELQAVRLLAEYLSSPSDKESA   85 (290)
T ss_dssp             HHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHHH---HS-TTS-SCCCHHHHHHHHHHCTSTTHHCH
T ss_pred             HHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHHH---HhccCC-ChhHHHHHHHHHHHhCccchHHH
Confidence            344566666654444 2221111122333445566666666554332   222222 44444444443333332333333


Q ss_pred             HHHHHHHHHcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 044352          304 REIHALVCRMGLH-IDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMR  382 (544)
Q Consensus       304 ~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  382 (544)
                      ..-++........ .+.........++...|++++|++++...  .+.......+..+.+.++++.|.+.++.|.+.  .
T Consensus        86 l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~  161 (290)
T PF04733_consen   86 LEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--D  161 (290)
T ss_dssp             HHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--S
T ss_pred             HHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--C
Confidence            3333332222212 22333333344566678888888877765  45566666777888888888888888888763  2


Q ss_pred             CCHHHHHHHHHHHhc----CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHH
Q 044352          383 ANEVTLISVLSACSH----GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMA  456 (544)
Q Consensus       383 ~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~  456 (544)
                       +..+...+..++..    .+.+.+|..+|+++.+  .+++++.+.+.++.++...|++++|.+++.+..  .+.++.++
T Consensus       162 -eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~L  238 (290)
T PF04733_consen  162 -EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTL  238 (290)
T ss_dssp             -CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHH
T ss_pred             -CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHH
Confidence             33444444444332    3357888888888765  445667777777777778888888887777653  34456666


Q ss_pred             HHHHHHHhhcCCh-HHHHHHHHHHHHcCCCCchh
Q 044352          457 GAFRNGCNIHGRR-DLAVTMGEEFFEMGLRKPDG  489 (544)
Q Consensus       457 ~~l~~~~~~~g~~-~~A~~~~~~~~~~~p~~~~~  489 (544)
                      .+++.+....|+. +.+.+++.++...+|.+|..
T Consensus       239 aNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~~~  272 (290)
T PF04733_consen  239 ANLIVCSLHLGKPTEAAERYLSQLKQSNPNHPLV  272 (290)
T ss_dssp             HHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSHHH
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHhCCCChHH
Confidence            6676666666666 56667777777777765543

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

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.21  E-value=1.9e-07  Score=80.83  Aligned_cols=198  Identities=12%  Similarity=0.038  Sum_probs=138.1

Q ss_pred             hHHHHHHHhhccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCC--CCCchh-HHHHHHHHHhc
Q 044352           15 YLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP--NPNVFM-LNWMVMASAFT   91 (544)
Q Consensus        15 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~-~~~l~~~~~~~   91 (544)
                      -...+...+...|++..|+..|-.+++..|+...++...+..|...|+...|+.-|.++.  +||-.. -.--...+.++
T Consensus        40 khlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~  119 (504)
T KOG0624|consen   40 KHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQ  119 (504)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhc
Confidence            345566777788888888888888888844444388888888888888888888888876  344322 22234567788


Q ss_pred             CCHHHHHHHHHHHHhcccccC--HHH------------HHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 044352           92 GNFQEAIGYFSLMREFIYRCN--KFT------------FSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDM  157 (544)
Q Consensus        92 ~~~~~A~~~~~~~~~~~~~p~--~~~------------~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  157 (544)
                      |.+++|..-|+..++....-+  ...            ....+..+...|+...|+.....+++.. +-+...+..-..+
T Consensus       120 Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc  198 (504)
T KOG0624|consen  120 GELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKC  198 (504)
T ss_pred             ccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHH
Confidence            889999888888877532111  011            2223445567788888888888888774 6677788888888


Q ss_pred             HHhCCCHHHHHHHHhhc---cCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHh
Q 044352          158 YSKCGLLCSARRVFHGM---FERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQF  215 (544)
Q Consensus       158 ~~~~~~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  215 (544)
                      |...|++..|+.-+...   ...+...+.-+-..+...|+.+.++...++.++.  .||..
T Consensus       199 ~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK  257 (504)
T KOG0624|consen  199 YIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHK  257 (504)
T ss_pred             HHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--Ccchh
Confidence            88888888887665554   3356666667777777888888888777777654  45543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.21  E-value=1.6e-09  Score=102.33  Aligned_cols=234  Identities=14%  Similarity=0.124  Sum_probs=134.9

Q ss_pred             ccchhhHHHHHHHHhhcCCChHHHHHHhccCCC----------CCch-hHHHHHHHHHhcCCHHHHHHHHHHHHhc----
Q 044352           43 DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPN----------PNVF-MLNWMVMASAFTGNFQEAIGYFSLMREF----  107 (544)
Q Consensus        43 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----------~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~----  107 (544)
                      .|....+...++..|...|+++.|+.+++....          +... ..+.+...|...+++.+|+.+|+++...    
T Consensus       195 ~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~  274 (508)
T KOG1840|consen  195 DPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEV  274 (508)
T ss_pred             CchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHh
Confidence            555444666688888888888888888776541          2222 2445667788888888888888887642    


Q ss_pred             -c--cccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHc-----C-CCCCh-hHHHHHHHHHHhCCCHHHHHHHHhhccC-
Q 044352          108 -I--YRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQM-----G-FENDV-SVGNALIDMYSKCGLLCSARRVFHGMFE-  176 (544)
Q Consensus       108 -~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~-  176 (544)
                       |  .+--..+++.|..+|.+.|++++|...++...+.     + ..+.. ..++.+...+...+++++|..+++...+ 
T Consensus       275 ~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i  354 (508)
T KOG1840|consen  275 FGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKI  354 (508)
T ss_pred             cCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence             1  1112346777777888888888888887766543     1 11222 2345556666777777777776664421 


Q ss_pred             ------C-C---hhhHHHHHHHHhccCChhHHHHHHHHHHHcC----C--CC-CHhhHHHHHHHHHhcCChHHHHHHHHH
Q 044352          177 ------R-D---VVSWTSMISGYCNVSKVDEAVVLFERMKLEG----L--EP-NQFTYNAIIASYARRGDSNAAFAFFSR  239 (544)
Q Consensus       177 ------~-~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~  239 (544)
                            + +   ..+++.|...|.+.|++++|.+++++.....    -  .+ ....++.+...|.+.+.+.+|.++|.+
T Consensus       355 ~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~  434 (508)
T KOG1840|consen  355 YLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEE  434 (508)
T ss_pred             HHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHH
Confidence                  1 1   1245556666666666666666666554321    0  11 123345555555555555555555554


Q ss_pred             hhhC----C--CCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 044352          240 MTAE----G--FVPDLVTWNAMISGFAQSKRENEALKLFKGML  276 (544)
Q Consensus       240 ~~~~----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  276 (544)
                      ....    |  .+....+|..|...|.+.|+++.|+++...+.
T Consensus       435 ~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  435 AKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            3221    1  11123445555566666666666665555544

>PF13041 PPR_2: PPR repeat family

Probab=99.20  E-value=6.1e-11  Score=74.87  Aligned_cols=45  Identities=36%  Similarity=0.696  Sum_probs=17.1

Q ss_pred             HhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHH
Q 044352          214 QFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISG  258 (544)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  258 (544)
                      ..+|+.++.+|++.|++++|.++|++|.+.|+.||..||+.++++
T Consensus         3 ~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~   47 (50)
T PF13041_consen    3 VVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILING   47 (50)
T ss_pred             hHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            333333333333333333333333333333333333333333333

>PF13041 PPR_2: PPR repeat family

Probab=99.19  E-value=6.3e-11  Score=74.80  Aligned_cols=50  Identities=22%  Similarity=0.432  Sum_probs=43.4

Q ss_pred             CCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhC
Q 044352           76 PNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVG  125 (544)
Q Consensus        76 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~  125 (544)
                      ||..+||+++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++
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            67888888888888888888888888888888888888888888888764

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.19  E-value=1.9e-07  Score=88.76  Aligned_cols=52  Identities=13%  Similarity=0.114  Sum_probs=37.7

Q ss_pred             HHhhccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccC
Q 044352           21 GKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKI   73 (544)
Q Consensus        21 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~   73 (544)
                      .+....|++..|...++....-|.... .|..+...-...|+.--|.++|..+
T Consensus       452 gaaid~~df~ra~afles~~~~~da~a-mw~~laelale~~nl~iaercfaai  503 (1636)
T KOG3616|consen  452 GAAIDDGDFDRATAFLESLEMGPDAEA-MWIRLAELALEAGNLFIAERCFAAI  503 (1636)
T ss_pred             ccccccCchHHHHHHHHhhccCccHHH-HHHHHHHHHHHhccchHHHHHHHHH
Confidence            345578899999887776544344444 8888888888888888888877654

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

Probab=99.18  E-value=7.8e-08  Score=90.94  Aligned_cols=195  Identities=7%  Similarity=-0.010  Sum_probs=120.5

Q ss_pred             CCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccc--hhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHH
Q 044352            9 NNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLN--IFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLN   82 (544)
Q Consensus         9 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~   82 (544)
                      +|..+.++..+...+...|+.+.+.+.+....+. +.+  ........+..+...|++++|...++++.   |.+...+.
T Consensus         2 dp~~~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~   81 (355)
T cd05804           2 DPDFALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPRDLLALK   81 (355)
T ss_pred             CCccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHH
Confidence            4556667777777777778888877777777666 322  22133334445567788888888877765   33444444


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHhcccccCH-HHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 044352           83 WMVMASAF----TGNFQEAIGYFSLMREFIYRCNK-FTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDM  157 (544)
Q Consensus        83 ~l~~~~~~----~~~~~~A~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  157 (544)
                      . ...+..    .+....+.+.++...  ...|+. .....+...+...|++++|...+++..+.. +.+...+..+..+
T Consensus        82 ~-~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i  157 (355)
T cd05804          82 L-HLGAFGLGDFSGMRDHVARVLPLWA--PENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHV  157 (355)
T ss_pred             H-hHHHHHhcccccCchhHHHHHhccC--cCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHH
Confidence            2 222222    344444444444311  122322 233444556677888888888888888775 5556667777777


Q ss_pred             HHhCCCHHHHHHHHhhccCC-----Ch--hhHHHHHHHHhccCChhHHHHHHHHHHH
Q 044352          158 YSKCGLLCSARRVFHGMFER-----DV--VSWTSMISGYCNVSKVDEAVVLFERMKL  207 (544)
Q Consensus       158 ~~~~~~~~~A~~~~~~~~~~-----~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~  207 (544)
                      +...|++++|...+++..+.     +.  ..|..+...+...|++++|..++++...
T Consensus       158 ~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         158 LEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             HHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            88888888888887776541     11  2344566777778888888888877653

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.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.15  E-value=2.6e-09  Score=98.59  Aligned_cols=219  Identities=11%  Similarity=0.044  Sum_probs=170.8

Q ss_pred             hhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHH
Q 044352          294 GGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSI  370 (544)
Q Consensus       294 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~  370 (544)
                      +.+.|++.+|.-.|+...+.. +.+..+|..|.......++-..|+..+++..+   .|......|.-.|...|.-..|+
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHH
Confidence            456777888888888887776 44778888888888888888888888877664   46678888888899999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHH--------HHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHH
Q 044352          371 ELFERMLEEGMRANEVTLIS--------VLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYD  442 (544)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~--------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  442 (544)
                      ..++..+...  |.......        .-..+.....+....++|-.+....+..+|+++...|+-.|.-.|.+++|.+
T Consensus       374 ~~L~~Wi~~~--p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  374 KMLDKWIRNK--PKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHhC--ccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            9999987742  11100000        0011122223445555565555543556889999999999999999999999


Q ss_pred             HHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          443 LLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       443 ~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      .|+.+.  .+.|...|+.|+..+....+.++|+..|.+++++.|.-..+...|+-.|...|.|+||.+.|=.++.
T Consensus       452 cf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  452 CFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            999874  4556789999999999999999999999999999999999999999999999999999998877764

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.13  E-value=7.3e-07  Score=95.57  Aligned_cols=330  Identities=12%  Similarity=-0.014  Sum_probs=210.1

Q ss_pred             HHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCC--C----CCC--HhHHHHHHHHH
Q 044352          188 GYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEG--F----VPD--LVTWNAMISGF  259 (544)
Q Consensus       188 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~----~~~--~~~~~~l~~~~  259 (544)
                      .+...|+++.+...+..+.......+..........+...|+++++..++......-  .    .+.  ......+...+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            344567777777776655221111122222334455567899999999888765421  0    111  11222334556


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHhhccCchHHHHHHHHHHHHcCC---CC--CHHHHHHHHHHHH
Q 044352          260 AQSKRENEALKLFKGMLVSGIKPNN----VTVTGVLQAGGLTGSIQIGREIHALVCRMGL---HI--DVFTGSALIDMYS  330 (544)
Q Consensus       260 ~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~  330 (544)
                      ...|++++|...+++....-...+.    .....+...+...|+++.|...+........   .+  .......+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            7899999999999988763211121    2334455567789999999998888765311   11  1234455677788


Q ss_pred             hcCCHHHHHHHHHhcCC-------c----cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCC--CHHHHHHHHHHH
Q 044352          331 KCGSLKDARTLFEITRI-------K----NVASWNAMIGCYGKHGMVDSSIELFERMLEEG--MRA--NEVTLISVLSAC  395 (544)
Q Consensus       331 ~~~~~~~A~~~~~~~~~-------~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~--~~~~~~~l~~~~  395 (544)
                      ..|+++.|...+++...       +    ....+..+...+...|++++|...+++.....  ..+  ....+..+....
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            89999999988765442       1    12234455666777899999999998876531  112  233445566677


Q ss_pred             hcCCchHHHHHHHHHHHHHhCCCCchhHH-----HHHHHHHHhcCCHHHHHHHHHhCCCC--CCh----hHHHHHHHHHh
Q 044352          396 SHGGLVEKGLEIFRSMKERYGVKISKEHY-----ACVVDMLCRSGRMVEAYDLLRQVPMY--VTN----SMAGAFRNGCN  464 (544)
Q Consensus       396 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~----~~~~~l~~~~~  464 (544)
                      ...|+++.|...+...............+     ...+..+...|+.+.|...+......  ...    ..+..++.++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            88999999999998885531111111111     11224455689999999998776421  111    11345666788


Q ss_pred             hcCChHHHHHHHHHHHHcCC------CCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          465 IHGRRDLAVTMGEEFFEMGL------RKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       465 ~~g~~~~A~~~~~~~~~~~p------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ..|++++|...++++++...      ....++..++.++.+.|+.++|...+.++++..
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            89999999999999987531      123467788999999999999999999998754

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

Probab=99.11  E-value=1.1e-08  Score=86.22  Aligned_cols=149  Identities=11%  Similarity=0.093  Sum_probs=112.8

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC
Q 044352          357 IGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGR  436 (544)
Q Consensus       357 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  436 (544)
                      +..|...|+++.+....+.+..    |.        ..+...++.+++...++...+  ..+.+...|..++..|...|+
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCC
Confidence            3456777777776444332221    11        012235667777777777766  346778889999999999999


Q ss_pred             HHHHHHHHHhCC--CCCChhHHHHHHHHH-hhcCC--hHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHH
Q 044352          437 MVEAYDLLRQVP--MYVTNSMAGAFRNGC-NIHGR--RDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRK  511 (544)
Q Consensus       437 ~~~A~~~~~~~~--~~~~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  511 (544)
                      +++|...|+++.  .+.+...+..++.++ ...|+  .++|..+++++++.+|+++.++..++..+.+.|++++|+..|+
T Consensus        89 ~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         89 YDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999998874  445677778887764 66676  5999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCC
Q 044352          512 IMKEKNVQ  519 (544)
Q Consensus       512 ~~~~~~~~  519 (544)
                      ++++....
T Consensus       169 ~aL~l~~~  176 (198)
T PRK10370        169 KVLDLNSP  176 (198)
T ss_pred             HHHhhCCC
Confidence            99886543

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

Probab=99.11  E-value=7.7e-07  Score=84.17  Aligned_cols=193  Identities=11%  Similarity=-0.041  Sum_probs=92.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCH--HHHHHHHHHHhcC
Q 044352          325 LIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGM-RANE--VTLISVLSACSHG  398 (544)
Q Consensus       325 l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~  398 (544)
                      +...+...|++++|...+++...   .+...+..+..++...|++++|...+++...... .|+.  ..+..+...+...
T Consensus       120 ~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~  199 (355)
T cd05804         120 LAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLER  199 (355)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHC
Confidence            33444455555555555554432   2233444555555555555555555555544311 1111  1233444455555


Q ss_pred             CchHHHHHHHHHHHHHhCCCCchhHH-H--HHHHHHHhcCCHHHHHHH---HHhC----CCCCChhHHHHHHHHHhhcCC
Q 044352          399 GLVEKGLEIFRSMKERYGVKISKEHY-A--CVVDMLCRSGRMVEAYDL---LRQV----PMYVTNSMAGAFRNGCNIHGR  468 (544)
Q Consensus       399 ~~~~~a~~~~~~~~~~~~~~~~~~~~-~--~l~~~~~~~g~~~~A~~~---~~~~----~~~~~~~~~~~l~~~~~~~g~  468 (544)
                      |++++|..++++........+..... .  .+...+...|..+.+.+.   ....    ..............++...|+
T Consensus       200 G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  279 (355)
T cd05804         200 GDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGD  279 (355)
T ss_pred             CCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCC
Confidence            56666655555543210101111100 1  112222233322222111   1110    000011111244456667788


Q ss_pred             hHHHHHHHHHHHHcCC---------CCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          469 RDLAVTMGEEFFEMGL---------RKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       469 ~~~A~~~~~~~~~~~p---------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .++|...++.+....-         .........+.++...|++++|.+.+...+...
T Consensus       280 ~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         280 KDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            8888888877755321         123455667778889999999999998887643

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.

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

Probab=99.10  E-value=2.5e-06  Score=82.45  Aligned_cols=248  Identities=12%  Similarity=0.059  Sum_probs=155.6

Q ss_pred             HhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhc--------c-cccCHHHHHHHHHHhhCC
Q 044352           56 VYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREF--------I-YRCNKFTFSIVLKACVGL  126 (544)
Q Consensus        56 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------~-~~p~~~~~~~ll~~~~~~  126 (544)
                      .|..-|+.+.|.+-.+.+..  ...|..|.+.|.+..+.+-|.-.+-.|...        . -.|+ .+=..+.......
T Consensus       737 fyvtiG~MD~AfksI~~IkS--~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieL  813 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIKS--DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIEL  813 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHhh--hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHH
Confidence            45667888888877766654  456888888888887777665555444321        0 1122 2222333334577


Q ss_pred             CChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCC-ChhhHHHHHHHHhccCChhHHHHHHHHH
Q 044352          127 LDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFER-DVVSWTSMISGYCNVSKVDEAVVLFERM  205 (544)
Q Consensus       127 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~  205 (544)
                      |.+++|+.+|.+..+..         .|=..|...|.+++|.++.+.--+- =..+|......+...++.+.|++.|++.
T Consensus       814 gMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK~  884 (1416)
T KOG3617|consen  814 GMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEKA  884 (1416)
T ss_pred             hhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHhc
Confidence            88888888888877542         3445567788888888877654331 1246666777777788888888888764


Q ss_pred             HHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHH
Q 044352          206 KLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNV  285 (544)
Q Consensus       206 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  285 (544)
                      .    .|--..+..|.      .++.....+.+.+.      |...|.-....+-..|+.|.|+.+|....+        
T Consensus       885 ~----~hafev~rmL~------e~p~~~e~Yv~~~~------d~~L~~WWgqYlES~GemdaAl~~Y~~A~D--------  940 (1416)
T KOG3617|consen  885 G----VHAFEVFRMLK------EYPKQIEQYVRRKR------DESLYSWWGQYLESVGEMDAALSFYSSAKD--------  940 (1416)
T ss_pred             C----ChHHHHHHHHH------hChHHHHHHHHhcc------chHHHHHHHHHHhcccchHHHHHHHHHhhh--------
Confidence            2    11111111111      12223333333332      445555566666678888888888877653        


Q ss_pred             HHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 044352          286 TVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITR  346 (544)
Q Consensus       286 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  346 (544)
                       |..+++..|-.|+.++|-++-++      .-|..+...+.+.|...|++.+|..+|-+..
T Consensus       941 -~fs~VrI~C~qGk~~kAa~iA~e------sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  941 -YFSMVRIKCIQGKTDKAARIAEE------SGDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             -hhhheeeEeeccCchHHHHHHHh------cccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence             45566777778888888777654      2255666677888888888888888876544

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.09  E-value=1.2e-06  Score=86.44  Aligned_cols=125  Identities=10%  Similarity=-0.041  Sum_probs=70.1

Q ss_pred             cchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhcc-------------------
Q 044352           13 VNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDK-------------------   72 (544)
Q Consensus        13 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-------------------   72 (544)
                      ..+|..+...|...-|...|.+-|+.+.+. +.+.. +.......|++..+++.|....-.                   
T Consensus       492 apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdae-aaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~  570 (1238)
T KOG1127|consen  492 APAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAE-AAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGP  570 (1238)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhh-hHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccc
Confidence            346666666666666777777777777777 44444 667777777777777766655322                   


Q ss_pred             -----------------CC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHH--HHHhhCCCChH
Q 044352           73 -----------------IP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIV--LKACVGLLDIK  130 (544)
Q Consensus        73 -----------------~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l--l~~~~~~~~~~  130 (544)
                                       ..   |.|...|..++.+|.+.|++..|+++|.+...  +.|+.. |...  ...-+..|.+.
T Consensus       571 yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~s~-y~~fk~A~~ecd~GkYk  647 (1238)
T KOG1127|consen  571 YYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPLSK-YGRFKEAVMECDNGKYK  647 (1238)
T ss_pred             cccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcHhH-HHHHHHHHHHHHhhhHH
Confidence                             11   33445555666666666666666666665554  233322 1111  11223455666


Q ss_pred             HHHHHHHHHHH
Q 044352          131 KGKQVHAVATQ  141 (544)
Q Consensus       131 ~a~~~~~~~~~  141 (544)
                      ++...+..+..
T Consensus       648 eald~l~~ii~  658 (1238)
T KOG1127|consen  648 EALDALGLIIY  658 (1238)
T ss_pred             HHHHHHHHHHH
Confidence            66655555443

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

Probab=99.05  E-value=4.3e-08  Score=87.59  Aligned_cols=246  Identities=11%  Similarity=0.023  Sum_probs=121.9

Q ss_pred             HhhccchhhhhhHHhHHHhhc-c-cchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHHHHH
Q 044352           22 KCMKSKALRQGKQVHALLCTN-D-LNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIG   99 (544)
Q Consensus        22 ~~~~~g~~~~A~~~~~~~~~~-~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~   99 (544)
                      -+.-.|++..++.-.+ .... + .... ....+.+++...|+++.++.-...-.+|.......+...+...++-+.++.
T Consensus        10 n~fy~G~Y~~~i~e~~-~~~~~~~~~~e-~~~~~~Rs~iAlg~~~~vl~ei~~~~~~~l~av~~la~y~~~~~~~e~~l~   87 (290)
T PF04733_consen   10 NQFYLGNYQQCINEAS-LKSFSPENKLE-RDFYQYRSYIALGQYDSVLSEIKKSSSPELQAVRLLAEYLSSPSDKESALE   87 (290)
T ss_dssp             HHHCTT-HHHHCHHHH-CHTSTCHHHHH-HHHHHHHHHHHTT-HHHHHHHS-TTSSCCCHHHHHHHHHHCTSTTHHCHHH
T ss_pred             HHHHhhhHHHHHHHhh-ccCCCchhHHH-HHHHHHHHHHHcCChhHHHHHhccCCChhHHHHHHHHHHHhCccchHHHHH
Confidence            3445677777776555 2222 2 2233 556677777778887777666655556666666555555544445555555


Q ss_pred             HHHHHHhccccc-CHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCC
Q 044352          100 YFSLMREFIYRC-NKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERD  178 (544)
Q Consensus       100 ~~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  178 (544)
                      -++........+ +..........+...|++++|++++...      .+.......+.+|.+.++++.|.+.++.+.+.+
T Consensus        88 ~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~  161 (290)
T PF04733_consen   88 ELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID  161 (290)
T ss_dssp             HHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS
T ss_pred             HHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            555544332221 2222222223445566666666665431      234444555666666666666666666665422


Q ss_pred             h-hhHHHH----HHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHH
Q 044352          179 V-VSWTSM----ISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWN  253 (544)
Q Consensus       179 ~-~~~~~l----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  253 (544)
                      . .+...+    +..+.-...+.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+++.+....+ +.++.+..
T Consensus       162 eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~La  239 (290)
T PF04733_consen  162 EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLA  239 (290)
T ss_dssp             CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHH
Confidence            1 111112    22222223466666666665433 34555555555556666666666666666655443 33444444


Q ss_pred             HHHHHHHcCCCH-HHHHHHHHHHHH
Q 044352          254 AMISGFAQSKRE-NEALKLFKGMLV  277 (544)
Q Consensus       254 ~l~~~~~~~~~~-~~a~~~~~~~~~  277 (544)
                      .++.+....|+. +.+.+++.++..
T Consensus       240 Nliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  240 NLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHHHHHHhCCChhHHHHHHHHHHH
Confidence            455555555555 444455555543

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

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.04  E-value=3.2e-08  Score=87.30  Aligned_cols=182  Identities=12%  Similarity=-0.008  Sum_probs=122.4

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--c-cH---HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH---H
Q 044352          317 IDVFTGSALIDMYSKCGSLKDARTLFEITRI--K-NV---ASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEV---T  387 (544)
Q Consensus       317 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---~  387 (544)
                      .....+...+..+...|+++.|...|+.+..  | ++   ..+..+..++...|++++|...++++.+.. +.+..   +
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a  109 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-PNHPDADYA  109 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCchHHH
Confidence            3456677777778888888888888876653  2 22   356777778888888888888888887752 21222   3


Q ss_pred             HHHHHHHHhcC--------CchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHH
Q 044352          388 LISVLSACSHG--------GLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAF  459 (544)
Q Consensus       388 ~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l  459 (544)
                      +..+..++...        |+++.|.+.++++...  .+.+...+..+.....    .....           ......+
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~~~~~-----------~~~~~~~  172 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----LRNRL-----------AGKELYV  172 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----HHHHH-----------HHHHHHH
Confidence            44555555543        6777888888887764  2222222222211100    00000           0112355


Q ss_pred             HHHHhhcCChHHHHHHHHHHHHcCCCCc---hhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          460 RNGCNIHGRRDLAVTMGEEFFEMGLRKP---DGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       460 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      +..+...|++++|+..++++++..|+++   .++..++.++.+.|++++|..+++.+...
T Consensus       173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            6678899999999999999999977654   68999999999999999999999988764

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).

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

Probab=99.03  E-value=3.1e-05  Score=76.90  Aligned_cols=350  Identities=15%  Similarity=0.142  Sum_probs=204.3

Q ss_pred             HHHHHHHHhhcCCChHHHHHHhccCC-CCCch-----hHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHH
Q 044352           49 LKSKLVGVYAGCGDVNSARLVFDKIP-NPNVF-----MLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKA  122 (544)
Q Consensus        49 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~-----~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~  122 (544)
                      .......++...+-..+-+++++++. .+++.     .-|.++-.. -.-+..+..+..+++-..+. |+      +...
T Consensus       986 ~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtA-ikad~trVm~YI~rLdnyDa-~~------ia~i 1057 (1666)
T KOG0985|consen  986 EVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTA-IKADRTRVMEYINRLDNYDA-PD------IAEI 1057 (1666)
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHH-hhcChHHHHHHHHHhccCCc-hh------HHHH
Confidence            33445556666666666666666654 22221     222222222 22233444444444433211 11      1223


Q ss_pred             hhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHH
Q 044352          123 CVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLF  202 (544)
Q Consensus       123 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  202 (544)
                      +...+-+++|..+|...     ..+..+.+.|+.   .-+..++|.+..++..+  +..|..+..+-.+.|...+|.+-|
T Consensus      1058 ai~~~LyEEAF~ifkkf-----~~n~~A~~VLie---~i~~ldRA~efAe~~n~--p~vWsqlakAQL~~~~v~dAieSy 1127 (1666)
T KOG0985|consen 1058 AIENQLYEEAFAIFKKF-----DMNVSAIQVLIE---NIGSLDRAYEFAERCNE--PAVWSQLAKAQLQGGLVKDAIESY 1127 (1666)
T ss_pred             HhhhhHHHHHHHHHHHh-----cccHHHHHHHHH---HhhhHHHHHHHHHhhCC--hHHHHHHHHHHHhcCchHHHHHHH
Confidence            34445556666666543     233444444433   24556666666665544  356888888888888888888776


Q ss_pred             HHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC
Q 044352          203 ERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKP  282 (544)
Q Consensus       203 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  282 (544)
                      -+      .-|+..|.-+++...+.|.+++-.+++.-..+..-.|...  +.|+.+|++.++..+..+++.       -|
T Consensus      1128 ik------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi~-------gp 1192 (1666)
T KOG0985|consen 1128 IK------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFIA-------GP 1192 (1666)
T ss_pred             Hh------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHhc-------CC
Confidence            54      3466778888999999999999888887777664455444  467888888888877665542       57


Q ss_pred             CHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc--------------
Q 044352          283 NNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK--------------  348 (544)
Q Consensus       283 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------------  348 (544)
                      |......+..-|...+.++.|.-+|..+         .-|..+...+...|+++.|...-++....              
T Consensus      1193 N~A~i~~vGdrcf~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~aRKAns~ktWK~VcfaCvd~~ 1263 (1666)
T KOG0985|consen 1193 NVANIQQVGDRCFEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDAARKANSTKTWKEVCFACVDKE 1263 (1666)
T ss_pred             CchhHHHHhHHHhhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHhchh
Confidence            7777777777888888888887777643         34556666666667776665554433311              


Q ss_pred             --------------cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHH
Q 044352          349 --------------NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKER  414 (544)
Q Consensus       349 --------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  414 (544)
                                    ...-...++.-|..+|-+++.+.+++..+... +.....|+-+.-.|.+- ++++..+.++-.-.+
T Consensus      1264 EFrlAQiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLE-RAHMgmfTELaiLYsky-kp~km~EHl~LFwsR 1341 (1666)
T KOG0985|consen 1264 EFRLAQICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLE-RAHMGMFTELAILYSKY-KPEKMMEHLKLFWSR 1341 (1666)
T ss_pred             hhhHHHhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchh-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHh
Confidence                          11234556777777888888777777654321 22333455555555543 455555555544443


Q ss_pred             hCCCC------chhHHHHHHHHHHhcCCHHHHHH
Q 044352          415 YGVKI------SKEHYACVVDMLCRSGRMVEAYD  442 (544)
Q Consensus       415 ~~~~~------~~~~~~~l~~~~~~~g~~~~A~~  442 (544)
                      .+++.      ....|..++-.|.+-..++.|.-
T Consensus      1342 vNipKviRA~eqahlW~ElvfLY~~y~eyDNAa~ 1375 (1666)
T KOG0985|consen 1342 VNIPKVIRAAEQAHLWSELVFLYDKYEEYDNAAL 1375 (1666)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHH
Confidence            23221      23456666667766666665543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.02  E-value=9.9e-09  Score=81.78  Aligned_cols=93  Identities=9%  Similarity=-0.119  Sum_probs=51.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcC
Q 044352          424 YACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG  501 (544)
Q Consensus       424 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  501 (544)
                      +...+..+...|++++|...|+.+.  .+.+...+..++.++...|++++|+..|+++++++|.++.++..++.++...|
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            3344455555555555555555542  23344455555555555555555555555555555555555555555555555


Q ss_pred             ChHHHHHHHHHHHhc
Q 044352          502 EWHEAENLRKIMKEK  516 (544)
Q Consensus       502 ~~~~A~~~~~~~~~~  516 (544)
                      ++++|+..|++.++.
T Consensus       107 ~~~eAi~~~~~Al~~  121 (144)
T PRK15359        107 EPGLAREAFQTAIKM  121 (144)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            555555555555543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.98  E-value=4e-06  Score=89.98  Aligned_cols=257  Identities=10%  Similarity=0.003  Sum_probs=110.4

Q ss_pred             HHhCCCHHHHHHHHhhccC----CCh----hhHHHHHHHHhccCChhHHHHHHHHHHHcCC---CC--CHhhHHHHHHHH
Q 044352          158 YSKCGLLCSARRVFHGMFE----RDV----VSWTSMISGYCNVSKVDEAVVLFERMKLEGL---EP--NQFTYNAIIASY  224 (544)
Q Consensus       158 ~~~~~~~~~A~~~~~~~~~----~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~  224 (544)
                      +...|++++|...++....    .+.    ...+.+...+...|++++|...+.+......   .+  ...++..+...+
T Consensus       462 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~  541 (903)
T PRK04841        462 AINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEIL  541 (903)
T ss_pred             HHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHH
Confidence            3445555555555544322    111    1223333444455555555555555432100   11  112233344445


Q ss_pred             HhcCChHHHHHHHHHhhh----CCCC--C-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcC--CCCC--HHHHHHHHHH
Q 044352          225 ARRGDSNAAFAFFSRMTA----EGFV--P-DLVTWNAMISGFAQSKRENEALKLFKGMLVSG--IKPN--NVTVTGVLQA  293 (544)
Q Consensus       225 ~~~~~~~~a~~~~~~~~~----~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~--~~~~~~l~~~  293 (544)
                      ...|+++.|...+++...    .+..  + ....+..+...+...|++++|...+.+.....  ..+.  ...+..+...
T Consensus       542 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  621 (903)
T PRK04841        542 FAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKI  621 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHH
Confidence            555555555555554332    1111  1 11223334444455566666555555543310  0111  1222233344


Q ss_pred             hhccCchHHHHHHHHHHHHcCC--CCCHH--H--HHHHHHHHHhcCCHHHHHHHHHhcCCcc---H----HHHHHHHHHH
Q 044352          294 GGLTGSIQIGREIHALVCRMGL--HIDVF--T--GSALIDMYSKCGSLKDARTLFEITRIKN---V----ASWNAMIGCY  360 (544)
Q Consensus       294 ~~~~~~~~~a~~~~~~~~~~~~--~~~~~--~--~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~----~~~~~l~~~~  360 (544)
                      ....|+.+.|...+........  .....  .  ....+..+...|+.+.|..++.....+.   .    ..+..+..++
T Consensus       622 ~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~  701 (903)
T PRK04841        622 SLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQ  701 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHH
Confidence            4555555555555555433210  00000  0  0111233334566666666654443211   0    0123444555


Q ss_pred             HhcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhcCCchHHHHHHHHHHHHH
Q 044352          361 GKHGMVDSSIELFERMLEE----GMRA-NEVTLISVLSACSHGGLVEKGLEIFRSMKER  414 (544)
Q Consensus       361 ~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  414 (544)
                      ...|++++|...+++....    |..+ ...+...+..++...|+.++|...+.+..+.
T Consensus       702 ~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        702 ILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5666666666666655442    1111 1124444555566666666666666666553

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.98  E-value=2.5e-08  Score=79.50  Aligned_cols=124  Identities=9%  Similarity=-0.041  Sum_probs=102.9

Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-
Q 044352          370 IELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-  448 (544)
Q Consensus       370 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-  448 (544)
                      ..++++.++.  .|+.  +......+...|++++|...|+.+..  .-+.+...+..++.++.+.|++++|...|+++. 
T Consensus        13 ~~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         13 EDILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            3456666653  4443  55567788899999999999999876  446678888999999999999999999999874 


Q ss_pred             -CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHh
Q 044352          449 -MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAA  499 (544)
Q Consensus       449 -~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  499 (544)
                       .+.+...+..++.++...|++++|+..|++++++.|+++..+...+.++..
T Consensus        87 l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~  138 (144)
T PRK15359         87 LDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQIM  138 (144)
T ss_pred             cCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence             556788999999999999999999999999999999999999888877654

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.97  E-value=5.3e-08  Score=90.17  Aligned_cols=248  Identities=11%  Similarity=-0.002  Sum_probs=170.4

Q ss_pred             HHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 044352          258 GFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKD  337 (544)
Q Consensus       258 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  337 (544)
                      -+.+.|+..+|.-.|+..+... +-+...|..|.......++-..|+..+.+..+.. +.+..+...|.-.|...|.-..
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHH
Confidence            3456666777776776666553 3345566666666666666667777777766665 3356666667777777777777


Q ss_pred             HHHHHHhcCCccHH-HHHHHH---------HHHHhcCChHHHHHHHHHH-HHcCCCCCHHHHHHHHHHHhcCCchHHHHH
Q 044352          338 ARTLFEITRIKNVA-SWNAMI---------GCYGKHGMVDSSIELFERM-LEEGMRANEVTLISVLSACSHGGLVEKGLE  406 (544)
Q Consensus       338 A~~~~~~~~~~~~~-~~~~l~---------~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  406 (544)
                      |...+.......+. .|....         ..+..........++|-++ ...+..+|+.+...|.-.|--.|++++|..
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            77776654321100 000000         0111111223344444444 444445788888999989999999999999


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC-hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCC
Q 044352          407 IFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVT-NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGL  484 (544)
Q Consensus       407 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  484 (544)
                      .|+.+..  --|.|...|+.|+..++...+..+|+..|.++. ..|. +.++..++-.|+..|.+++|.++|-.++.+.+
T Consensus       452 cf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~  529 (579)
T KOG1125|consen  452 CFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQR  529 (579)
T ss_pred             HHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhh
Confidence            9999987  345678899999999999999999999999975 5555 56889999999999999999999999998764


Q ss_pred             C-----C-----chhHHHHHHHHHhcCChHHHHHH
Q 044352          485 R-----K-----PDGFVMLSNICAADGEWHEAENL  509 (544)
Q Consensus       485 ~-----~-----~~~~~~l~~~~~~~g~~~~A~~~  509 (544)
                      .     .     ..+|..|=.++.-.++.|-+.+.
T Consensus       530 ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  530 KSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             cccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            3     1     14677777777777877755544

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

Probab=98.97  E-value=1.3e-07  Score=96.14  Aligned_cols=201  Identities=14%  Similarity=0.155  Sum_probs=163.7

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc--------cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH
Q 044352          316 HIDVFTGSALIDMYSKCGSLKDARTLFEITRIK--------NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVT  387 (544)
Q Consensus       316 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  387 (544)
                      +.+...|...|......++.++|+++++++...        -...|.+++......|.-+...++|+++.+.  ......
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            445667888888888999999999998877641        2347888888888888888899999999884  334557


Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC----CCCChhHHHHHHHHH
Q 044352          388 LISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP----MYVTNSMAGAFRNGC  463 (544)
Q Consensus       388 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~~l~~~~  463 (544)
                      |..|...|.+.+.+++|.++++.|.++++  .....|..++..+.+..+-+.|..++.++.    .........-.+..-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            88888899999999999999999999766  567788899999999999999999988763    222344445555566


Q ss_pred             hhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 044352          464 NIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQK  520 (544)
Q Consensus       464 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  520 (544)
                      .+.|+.+.++.+|+..+.-.|.-.+.|..+++.-.+.|+.+.++.+|++++..++.+
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence            788999999999999999999999999999999999999999999999999887654

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

Probab=98.91  E-value=5.2e-05  Score=70.27  Aligned_cols=433  Identities=13%  Similarity=0.117  Sum_probs=249.4

Q ss_pred             ccccCCCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC--CCCch
Q 044352            3 RLIFPINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP--NPNVF   79 (544)
Q Consensus         3 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~   79 (544)
                      |..+.-+|-+-.+|..+++-+-.+ -+++++..+++++.. |..+. +|...+....+..+++....+|.+..  .-+..
T Consensus        10 ~~rie~nP~di~sw~~lire~qt~-~~~~~R~~YEq~~~~FP~s~r-~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlD   87 (656)
T KOG1914|consen   10 RERIEENPYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVFPSSPR-AWKLYIERELASKDFESVEKLFSRCLVKVLNLD   87 (656)
T ss_pred             HHHHhcCCccHHHHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcH-HHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHh
Confidence            445667888888999999876544 899999999999999 66667 99999999999999999999999876  45677


Q ss_pred             hHHHHHHHHHh-cCCHH----HHHHHHHHHHh-cccccCHH-H---HHHHHHHhh------CCCChHHHHHHHHHHHHcC
Q 044352           80 MLNWMVMASAF-TGNFQ----EAIGYFSLMRE-FIYRCNKF-T---FSIVLKACV------GLLDIKKGKQVHAVATQMG  143 (544)
Q Consensus        80 ~~~~l~~~~~~-~~~~~----~A~~~~~~~~~-~~~~p~~~-~---~~~ll~~~~------~~~~~~~a~~~~~~~~~~~  143 (544)
                      .|...++---+ .|+..    ...+.|+-..+ .|+.+-.. .   |...++..-      ...+++...+++.+++...
T Consensus        88 LW~lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tP  167 (656)
T KOG1914|consen   88 LWKLYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTP  167 (656)
T ss_pred             HHHHHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCc
Confidence            77777764433 23322    23344444333 23333221 2   233333322      2334556667777776543


Q ss_pred             CCCChhHHHHH------HHHH-------HhCCCHHHHHHHHhhccC------CC---------------hhhHHHHHHHH
Q 044352          144 FENDVSVGNAL------IDMY-------SKCGLLCSARRVFHGMFE------RD---------------VVSWTSMISGY  189 (544)
Q Consensus       144 ~~~~~~~~~~l------~~~~-------~~~~~~~~A~~~~~~~~~------~~---------------~~~~~~l~~~~  189 (544)
                      +..=...|+..      ++..       -+...+-.|.++++++..      .+               ...|-.+|..-
T Consensus       168 m~nlEkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wE  247 (656)
T KOG1914|consen  168 MHNLEKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWE  247 (656)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHH
Confidence            22112222221      1111       122344555555555411      00               11233333221


Q ss_pred             hccC------Ch--hHHHHHHHHH-HHcCCCCCHhhH-----HHHHHHHHhcCC-------hHHHHHHHHHhhhCCCCCC
Q 044352          190 CNVS------KV--DEAVVLFERM-KLEGLEPNQFTY-----NAIIASYARRGD-------SNAAFAFFSRMTAEGFVPD  248 (544)
Q Consensus       190 ~~~~------~~--~~a~~~~~~~-~~~~~~~~~~~~-----~~l~~~~~~~~~-------~~~a~~~~~~~~~~~~~~~  248 (544)
                      -.++      ..  ....-.+++. .-.+..|+....     ....+.+...|+       .+++..+++.....-...+
T Consensus       248 ksNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~  327 (656)
T KOG1914|consen  248 KSNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKEN  327 (656)
T ss_pred             hcCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHH
Confidence            1111      00  0111112221 111223322110     111122333343       3455555555443322334


Q ss_pred             HhHHHHHHHHHH---cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCC-CHHHHHH
Q 044352          249 LVTWNAMISGFA---QSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHI-DVFTGSA  324 (544)
Q Consensus       249 ~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~  324 (544)
                      ..+|..+...--   +-...+.....+++++..-..--..+|...+....+..-...|..+|.++.+.+..+ ++.+..+
T Consensus       328 ~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A  407 (656)
T KOG1914|consen  328 KLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAA  407 (656)
T ss_pred             HHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHH
Confidence            444444443211   122366677777777654323334567777888888888899999999998877665 6777777


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhcCC
Q 044352          325 LIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRAN--EVTLISVLSACSHGG  399 (544)
Q Consensus       325 l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~  399 (544)
                      ++..+| .++..-|.++|+-..+   .++.--...+.-+...++-..+..+|++.+..++.|+  ...|..++..-..-|
T Consensus       408 ~mEy~c-skD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vG  486 (656)
T KOG1914|consen  408 LMEYYC-SKDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVG  486 (656)
T ss_pred             HHHHHh-cCChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcc
Confidence            777666 4788889999987664   2444456677777888888899999999988866654  358888888888889


Q ss_pred             chHHHHHHHHHHHHHhC--CCCchhHHHHHHHHHHhcCCHH
Q 044352          400 LVEKGLEIFRSMKERYG--VKISKEHYACVVDMLCRSGRMV  438 (544)
Q Consensus       400 ~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~  438 (544)
                      ++..+.++-++....+.  ..+....-..++..|.-.+.+.
T Consensus       487 dL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~  527 (656)
T KOG1914|consen  487 DLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYP  527 (656)
T ss_pred             cHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhccccc
Confidence            99888888887766433  2222233344455555444433

>PLN02789 farnesyltranstransferase

Probab=98.91  E-value=1.4e-06  Score=78.97  Aligned_cols=213  Identities=12%  Similarity=-0.027  Sum_probs=139.7

Q ss_pred             CchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCCh--HHHHH
Q 044352          298 GSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCG-SLKDARTLFEITRI---KNVASWNAMIGCYGKHGMV--DSSIE  371 (544)
Q Consensus       298 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~--~~A~~  371 (544)
                      +..++|......+++.. +.+..+|+....++...| ++++++..++.+..   .+..+|+.....+.+.|+.  ++++.
T Consensus        51 e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~  129 (320)
T PLN02789         51 ERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELE  129 (320)
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHH
Confidence            34445555555555443 223344444444455555 45677777766553   3444566555455555543  56788


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhc---CCH----HHHHHHH
Q 044352          372 LFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRS---GRM----VEAYDLL  444 (544)
Q Consensus       372 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~----~~A~~~~  444 (544)
                      +++++++.. +-|..+|.....++...|+++++++.++++.+.  -+.+...|+.....+.+.   |..    +++.++.
T Consensus       130 ~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~--d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~  206 (320)
T PLN02789        130 FTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE--DVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYT  206 (320)
T ss_pred             HHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--CCCchhHHHHHHHHHHhccccccccccHHHHHHHH
Confidence            888887753 447778888888888888888888888888874  344556666666555444   222    4566666


Q ss_pred             HhCC--CCCChhHHHHHHHHHhhc----CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcC-----------------
Q 044352          445 RQVP--MYVTNSMAGAFRNGCNIH----GRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG-----------------  501 (544)
Q Consensus       445 ~~~~--~~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-----------------  501 (544)
                      .++.  .+.+..+|+.+...+...    ++..+|...+.++++.+|+++.++..|+.+|....                 
T Consensus       207 ~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~  286 (320)
T PLN02789        207 IDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEEL  286 (320)
T ss_pred             HHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhcccccc
Confidence            4542  455677888887777763    45577999999999999999999999999998743                 


Q ss_pred             -ChHHHHHHHHHHH
Q 044352          502 -EWHEAENLRKIMK  514 (544)
Q Consensus       502 -~~~~A~~~~~~~~  514 (544)
                       ..++|.++++.+.
T Consensus       287 ~~~~~a~~~~~~l~  300 (320)
T PLN02789        287 SDSTLAQAVCSELE  300 (320)
T ss_pred             ccHHHHHHHHHHHH
Confidence             3467888888873

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.90  E-value=2.4e-07  Score=92.63  Aligned_cols=133  Identities=8%  Similarity=-0.053  Sum_probs=84.6

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHH
Q 044352          349 NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRA-NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACV  427 (544)
Q Consensus       349 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  427 (544)
                      ++..+..|.....+.|++++|..+++...+.  .| +......++.++.+.+++++|...+++...  .-+.+......+
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~~  160 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILLE  160 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHHH
Confidence            3556666666666777777777777777664  34 344556666666677777777777776665  334445556666


Q ss_pred             HHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC
Q 044352          428 VDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR  485 (544)
Q Consensus       428 ~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  485 (544)
                      ..++.+.|++++|.++|+++.  .+.+..++..++.++...|+.++|...|+++++...+
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~  220 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGD  220 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCc
Confidence            666667777777777776654  2223556666666666777777777777777666543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.89  E-value=0.00011  Score=72.48  Aligned_cols=218  Identities=13%  Similarity=0.076  Sum_probs=150.9

Q ss_pred             hccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHH
Q 044352           24 MKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGY  100 (544)
Q Consensus        24 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~  100 (544)
                      ...+++..|.+..+++++..|+...+...-+-.+.+.|+.++|..+++...   ..|..+...+-.+|...++.++|..+
T Consensus        20 ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~   99 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHL   99 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHH
Confidence            366899999999999999955544144444455668999999999998765   45778889999999999999999999


Q ss_pred             HHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC-C---------HHHHHHH
Q 044352          101 FSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCG-L---------LCSARRV  170 (544)
Q Consensus       101 ~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~---------~~~A~~~  170 (544)
                      |++..+  ..|+......+..+|++.+++.+-.++--++.+. ++.++..+=+++......- .         ..-|.+.
T Consensus       100 Ye~~~~--~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m  176 (932)
T KOG2053|consen  100 YERANQ--KYPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKM  176 (932)
T ss_pred             HHHHHh--hCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHH
Confidence            999987  4677778888888999988887755554444443 3455555445555544321 1         2234555


Q ss_pred             HhhccCCC-----hhhHHHHHHHHhccCChhHHHHHHH-HHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044352          171 FHGMFERD-----VVSWTSMISGYCNVSKVDEAVVLFE-RMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEG  244 (544)
Q Consensus       171 ~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  244 (544)
                      ++.+.+.+     ..-.......+...|.+++|.+++. ...+.-...+...-+.-+..+...+++.+..++-.++...|
T Consensus       177 ~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  177 VQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            55554433     1122233344556788999999994 44444333344444566777788889998888888888775

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

Probab=98.89  E-value=4.8e-07  Score=86.28  Aligned_cols=212  Identities=8%  Similarity=-0.073  Sum_probs=148.8

Q ss_pred             HHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--ccHHHHHHHHHHHHhcCC
Q 044352          288 TGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI--KNVASWNAMIGCYGKHGM  365 (544)
Q Consensus       288 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~g~  365 (544)
                      ..+...+...|-...|..+++++         ..+..++.+|...|+..+|..+..+..+  +++..|..+++......-
T Consensus       402 ~~laell~slGitksAl~I~Erl---------emw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~  472 (777)
T KOG1128|consen  402 RLLAELLLSLGITKSALVIFERL---------EMWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSL  472 (777)
T ss_pred             HHHHHHHHHcchHHHHHHHHHhH---------HHHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHH
Confidence            34445555666666666666643         3455566677777777777666654443  455566666665555555


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHH
Q 044352          366 VDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLR  445 (544)
Q Consensus       366 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  445 (544)
                      +++|.++.+.....       .-..+.....+.++++++.+.|+...+.  .+....+|..++.+..+.++++.|.+.|.
T Consensus       473 yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~--nplq~~~wf~~G~~ALqlek~q~av~aF~  543 (777)
T KOG1128|consen  473 YEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEI--NPLQLGTWFGLGCAALQLEKEQAAVKAFH  543 (777)
T ss_pred             HHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhc--CccchhHHHhccHHHHHHhhhHHHHHHHH
Confidence            66666665543321       1111222223467788888888777663  34456688888888889999999999888


Q ss_pred             hCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          446 QVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       446 ~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ...  .+.+..+|+++..+|.+.|+-.+|...+.++++-+-.+...|.+..-+..+.|.+++|++.+.++.+..
T Consensus       544 rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~~  617 (777)
T KOG1128|consen  544 RCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLR  617 (777)
T ss_pred             HHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHhh
Confidence            764  344567899999999999999999999999999888888999999999999999999999999987643

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

Probab=98.86  E-value=5.2e-07  Score=86.09  Aligned_cols=188  Identities=16%  Similarity=0.069  Sum_probs=160.0

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044352          315 LHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSA  394 (544)
Q Consensus       315 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  394 (544)
                      .+|--..-..+...+...|-...|..+|+++.     .|...+.+|...|+..+|..+..+..+  -+|++..|..+...
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erle-----mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv  466 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERLE-----MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDV  466 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhHH-----HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhh
Confidence            34445556678888999999999999999765     677888999999999999999999888  38999999999998


Q ss_pred             HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHH
Q 044352          395 CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A  472 (544)
                      .....-+++|.++.+....+        .-..+.....+.+++.++.+.|+...  .+....+|..++.+..+.++.+.|
T Consensus       467 ~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~a  538 (777)
T KOG1128|consen  467 LHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAA  538 (777)
T ss_pred             ccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHH
Confidence            88888889999988776542        22233334456899999999998753  455678999999999999999999


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          473 VTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .+.|.....++|++...|+++..+|.+.|+..+|...+++.++-+
T Consensus       539 v~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  539 VKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             HHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC
Confidence            999999999999999999999999999999999999999999877

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.85  E-value=4.1e-08  Score=76.48  Aligned_cols=98  Identities=9%  Similarity=-0.073  Sum_probs=88.3

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC  497 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  497 (544)
                      +......+...+...|++++|..+|+-+.  .+.+...|..|+.++...|++++|+..|..+..++|++|.++..++.++
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            34556677778889999999999999874  5567789999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHhcC
Q 044352          498 AADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       498 ~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ...|+.+.|++.|+..+...
T Consensus       114 L~lG~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        114 LACDNVCYAIKALKAVVRIC  133 (157)
T ss_pred             HHcCCHHHHHHHHHHHHHHh
Confidence            99999999999999998765

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

Probab=98.84  E-value=8.4e-07  Score=74.40  Aligned_cols=156  Identities=16%  Similarity=0.106  Sum_probs=110.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 044352          354 NAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR  433 (544)
Q Consensus       354 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  433 (544)
                      ..+...+...|+-+....+....... .+.+.......+....+.|++..|...+.+...  .-++|...|+.++-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            44555666677777777666665442 233444555567777777788888877777765  567777777777777778


Q ss_pred             cCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHH
Q 044352          434 SGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRK  511 (544)
Q Consensus       434 ~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  511 (544)
                      .|++++|..-|.+..  ...++...++++-.+.-.|+.+.|..++..+....+.++.+-..|+.+....|++++|..+..
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         147 LGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            888887777776653  344566677777777778888888888888877777777888888888888888888877654


Q ss_pred             H
Q 044352          512 I  512 (544)
Q Consensus       512 ~  512 (544)
                      +
T Consensus       227 ~  227 (257)
T COG5010         227 Q  227 (257)
T ss_pred             c
Confidence            3

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.83  E-value=1.8e-07  Score=82.47  Aligned_cols=181  Identities=13%  Similarity=0.033  Sum_probs=125.0

Q ss_pred             CCCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccch---hhHHHHHHHHhhcCCChHHHHHHhccCC---CCCch
Q 044352            7 PINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNI---FSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVF   79 (544)
Q Consensus         7 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~   79 (544)
                      |.++.+...+...+..+...|+++.|...++++++. |.++   . ++..++.++...|++++|+..++.+.   |.++.
T Consensus        27 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~-a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~  105 (235)
T TIGR03302        27 PVEEWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQ-AQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPD  105 (235)
T ss_pred             CcccCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCc
Confidence            566677788888888888999999999999998888 4433   4 67788888888999999999998876   22332


Q ss_pred             ---hHHHHHHHHHhc--------CCHHHHHHHHHHHHhcccccCHH-HHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCC
Q 044352           80 ---MLNWMVMASAFT--------GNFQEAIGYFSLMREFIYRCNKF-TFSIVLKACVGLLDIKKGKQVHAVATQMGFEND  147 (544)
Q Consensus        80 ---~~~~l~~~~~~~--------~~~~~A~~~~~~~~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  147 (544)
                         ++..+..++...        |++++|++.|+++...  .|+.. ....+.... .         +....        
T Consensus       106 ~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~-~---------~~~~~--------  165 (235)
T TIGR03302       106 ADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMD-Y---------LRNRL--------  165 (235)
T ss_pred             hHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHH-H---------HHHHH--------
Confidence               355555555544        6788888888888774  34332 221111110 0         00000        


Q ss_pred             hhHHHHHHHHHHhCCCHHHHHHHHhhccC--C----ChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 044352          148 VSVGNALIDMYSKCGLLCSARRVFHGMFE--R----DVVSWTSMISGYCNVSKVDEAVVLFERMKLE  208 (544)
Q Consensus       148 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  208 (544)
                      ......+...|.+.|++.+|...++...+  |    ....+..+..++...|++++|..+++.+...
T Consensus       166 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       166 AGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            01112456678889999999999888854  2    2357888889999999999999998888754

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).

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.83  E-value=5.7e-07  Score=74.68  Aligned_cols=175  Identities=11%  Similarity=0.042  Sum_probs=125.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--c-cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 044352          321 TGSALIDMYSKCGSLKDARTLFEITRI--K-NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSH  397 (544)
Q Consensus       321 ~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  397 (544)
                      +|..++-+....|+.+.|..+++.+..  | +..+-..-...+-..|++++|+++++.+++.+ +.|..++..-+...-.
T Consensus        54 l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka  132 (289)
T KOG3060|consen   54 LYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKA  132 (289)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHH
Confidence            455666777788888888888877653  2 22222222233456788999999999988874 4466677666666667


Q ss_pred             CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcC---ChHHH
Q 044352          398 GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHG---RRDLA  472 (544)
Q Consensus       398 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g---~~~~A  472 (544)
                      .|+--+|++-+....+  .+..|.+.|..+...|...|++++|.-.++++.  .|.++..+..++..+.-.|   +.+.|
T Consensus       133 ~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~a  210 (289)
T KOG3060|consen  133 QGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELA  210 (289)
T ss_pred             cCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHH
Confidence            7777788888888877  567888899999999999999999998888874  3445556667776655433   67888


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          473 VTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      .++|.++++++|.+...+..+-.++.
T Consensus       211 rkyy~~alkl~~~~~ral~GI~lc~~  236 (289)
T KOG3060|consen  211 RKYYERALKLNPKNLRALFGIYLCGS  236 (289)
T ss_pred             HHHHHHHHHhChHhHHHHHHHHHHHH
Confidence            89999999998876666666544443

>PLN02789 farnesyltranstransferase

Probab=98.82  E-value=4.8e-07  Score=81.97  Aligned_cols=187  Identities=14%  Similarity=0.024  Sum_probs=143.9

Q ss_pred             HHHhcCCHHHHHHHHHhcCCc---cHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCch--
Q 044352          328 MYSKCGSLKDARTLFEITRIK---NVASWNAMIGCYGKHG-MVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLV--  401 (544)
Q Consensus       328 ~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--  401 (544)
                      .+...++.++|+.+...+...   +..+|+....++...| ++++++..++++.... +.+..+|......+.+.|..  
T Consensus        46 ~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~  124 (320)
T PLN02789         46 VYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAA  124 (320)
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhh
Confidence            344567788888888877753   3446666666667777 6799999999999863 44666777666666666653  


Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhc---CC----hHHH
Q 044352          402 EKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIH---GR----RDLA  472 (544)
Q Consensus       402 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~---g~----~~~A  472 (544)
                      +++..+++++.+  ..+-+..+|.....++...|+++++++.++++.  .+.+..+|+....++.+.   |.    .+++
T Consensus       125 ~~el~~~~kal~--~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~e  202 (320)
T PLN02789        125 NKELEFTRKILS--LDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRDSE  202 (320)
T ss_pred             HHHHHHHHHHHH--hCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHHHH
Confidence            678889988887  345678889999999999999999999999985  556778888877766554   22    3578


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHh----cCChHHHHHHHHHHHhcC
Q 044352          473 VTMGEEFFEMGLRKPDGFVMLSNICAA----DGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  517 (544)
                      +.+..++++.+|+|..+|..++.++..    .++..+|.+...++.+.+
T Consensus       203 l~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~  251 (320)
T PLN02789        203 LKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD  251 (320)
T ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc
Confidence            888999999999999999999999988    355677988888876644

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

Probab=98.82  E-value=7.9e-07  Score=75.03  Aligned_cols=155  Identities=7%  Similarity=0.079  Sum_probs=119.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHH
Q 044352          325 LIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKG  404 (544)
Q Consensus       325 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  404 (544)
                      -+..|...|+++.+....+....+.        ..+...++.+++...+++.+... +.+...|..+...|...|+++.|
T Consensus        22 ~~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A   92 (198)
T PRK10370         22 CVGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNA   92 (198)
T ss_pred             HHHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            3456778888887755543332221        01223567788888888888763 66888999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHH-HhcCC--HHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHH
Q 044352          405 LEIFRSMKERYGVKISKEHYACVVDML-CRSGR--MVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEF  479 (544)
Q Consensus       405 ~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  479 (544)
                      ...|++..+.  .+.+...+..+..++ ...|+  .++|.++++++.  .+.+..++..++..+...|++++|+..|+++
T Consensus        93 ~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~a  170 (198)
T PRK10370         93 LLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKV  170 (198)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999873  455778888888874 67777  599999999874  4556788899999999999999999999999


Q ss_pred             HHcCCCCchhH
Q 044352          480 FEMGLRKPDGF  490 (544)
Q Consensus       480 ~~~~p~~~~~~  490 (544)
                      ++++|++..-.
T Consensus       171 L~l~~~~~~r~  181 (198)
T PRK10370        171 LDLNSPRVNRT  181 (198)
T ss_pred             HhhCCCCccHH
Confidence            99998766544

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

Probab=98.79  E-value=3.7e-07  Score=76.45  Aligned_cols=172  Identities=16%  Similarity=0.079  Sum_probs=126.6

Q ss_pred             hhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044352           31 QGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREF  107 (544)
Q Consensus        31 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  107 (544)
                      .+..+.......|.+.. + ..+...+...|+-+.+..+.....   +.+....+..+....+.|++..|+..+++....
T Consensus        52 a~~al~~~~~~~p~d~~-i-~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l  129 (257)
T COG5010          52 AAAALGAAVLRNPEDLS-I-AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL  129 (257)
T ss_pred             HHHHHHHHHhcCcchHH-H-HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc
Confidence            34444444444455666 6 777777778888888887777754   445555666788888888888888888888764


Q ss_pred             ccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccC---CChhhHHH
Q 044352          108 IYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFE---RDVVSWTS  184 (544)
Q Consensus       108 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~  184 (544)
                       -++|...|+.+.-+|.+.|+++.|..-|.+..+.- +.++...+.+.-.+.-.|+.+.|..++.....   .|...-..
T Consensus       130 -~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~N  207 (257)
T COG5010         130 -APTDWEAWNLLGAALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQN  207 (257)
T ss_pred             -CCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHH
Confidence             34577788888888888888888888888888774 55667777777778888888888888877632   46667777


Q ss_pred             HHHHHhccCChhHHHHHHHHHH
Q 044352          185 MISGYCNVSKVDEAVVLFERMK  206 (544)
Q Consensus       185 l~~~~~~~~~~~~a~~~~~~~~  206 (544)
                      +.......|++++|.++...-.
T Consensus       208 LAl~~~~~g~~~~A~~i~~~e~  229 (257)
T COG5010         208 LALVVGLQGDFREAEDIAVQEL  229 (257)
T ss_pred             HHHHHhhcCChHHHHhhccccc
Confidence            7777788888888888776543

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

Probab=98.78  E-value=2.7e-06  Score=86.04  Aligned_cols=241  Identities=11%  Similarity=0.056  Sum_probs=161.6

Q ss_pred             CCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHH
Q 044352            8 INNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVM   86 (544)
Q Consensus         8 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~   86 (544)
                      -+|....++..|+..+...|++++|.++++..++. |.... .+..++..+.+.++.+++..+             .++.
T Consensus        26 ~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~-~yy~~G~l~~q~~~~~~~~lv-------------~~l~   91 (906)
T PRK14720         26 YSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSIS-ALYISGILSLSRRPLNDSNLL-------------NLID   91 (906)
T ss_pred             CCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCccee-hHHHHHHHHHhhcchhhhhhh-------------hhhh
Confidence            35667788999999999999999999999988888 44455 777777788888886666655             3344


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHH
Q 044352           87 ASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCS  166 (544)
Q Consensus        87 ~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  166 (544)
                      ......++.-...+...|..  ..-+...+..+..+|.+.|+.+++..+++++++.. +.|+.+.|.+...|... ++++
T Consensus        92 ~~~~~~~~~~ve~~~~~i~~--~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~K  167 (906)
T PRK14720         92 SFSQNLKWAIVEHICDKILL--YGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEK  167 (906)
T ss_pred             hcccccchhHHHHHHHHHHh--hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHH
Confidence            44444455444444555555  23355578888889999999999999999999987 77888999999999988 9999


Q ss_pred             HHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhC-CC
Q 044352          167 ARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAE-GF  245 (544)
Q Consensus       167 A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~  245 (544)
                      |..++.+..           ..+...+++.++.++|.++....  |+...+               -..+.+.+... |.
T Consensus       168 A~~m~~KAV-----------~~~i~~kq~~~~~e~W~k~~~~~--~~d~d~---------------f~~i~~ki~~~~~~  219 (906)
T PRK14720        168 AITYLKKAI-----------YRFIKKKQYVGIEEIWSKLVHYN--SDDFDF---------------FLRIERKVLGHREF  219 (906)
T ss_pred             HHHHHHHHH-----------HHHHhhhcchHHHHHHHHHHhcC--cccchH---------------HHHHHHHHHhhhcc
Confidence            998877653           33666678888888888887652  322211               11112222111 11


Q ss_pred             CCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhh
Q 044352          246 VPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGG  295 (544)
Q Consensus       246 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  295 (544)
                      ..-..++-.+-..|-..+++++++.+++.+++.. +-|......++.+|.
T Consensus       220 ~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        220 TRLVGLLEDLYEPYKALEDWDEVIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             chhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            2233444455566666677777777777776553 234444555555443

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

Probab=98.76  E-value=1.5e-07  Score=74.78  Aligned_cols=96  Identities=16%  Similarity=0.089  Sum_probs=58.1

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHh
Q 044352          422 EHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAA  499 (544)
Q Consensus       422 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  499 (544)
                      .....++..+...|++++|.+.++.+.  .+.+...+..++..+...|++++|..+++++++.+|+++..+..++.++..
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~   97 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLA   97 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            344445555556666666666665542  233455555666666666666666666666666666666666666666666


Q ss_pred             cCChHHHHHHHHHHHhcC
Q 044352          500 DGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       500 ~g~~~~A~~~~~~~~~~~  517 (544)
                      .|++++|...+++.++..
T Consensus        98 ~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        98 LGEPESALKALDLAIEIC  115 (135)
T ss_pred             cCCHHHHHHHHHHHHHhc
Confidence            666666666666666543

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

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.76  E-value=4e-06  Score=69.77  Aligned_cols=182  Identities=13%  Similarity=0.083  Sum_probs=95.9

Q ss_pred             CCCHHHHHHHHHHHHH---cC-CCCCHHH-HHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 044352          262 SKRENEALKLFKGMLV---SG-IKPNNVT-VTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLK  336 (544)
Q Consensus       262 ~~~~~~a~~~~~~~~~---~~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  336 (544)
                      ..+.++.++++.+++.   .| ..++..+ +..++-+....++.+.|...++.+...- +.+..+-..-...+...|.++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchh
Confidence            4455666666666553   22 3334332 3344455555566666666666655543 333333333333444556666


Q ss_pred             HHHHHHHhcCCc---cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Q 044352          337 DARTLFEITRIK---NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKE  413 (544)
Q Consensus       337 ~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  413 (544)
                      +|+++++.+...   |..++-.-+...-..|+.-+|++-+....+. +..|...|.-+...|...|++++|.-.++++.-
T Consensus       104 ~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  104 EAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             hHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            666666665543   2334444444444555555666666665554 455666666666666666666666666666653


Q ss_pred             HhCCCCchhHHHHHHHHHHhcC---CHHHHHHHHHhC
Q 044352          414 RYGVKISKEHYACVVDMLCRSG---RMVEAYDLLRQV  447 (544)
Q Consensus       414 ~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~  447 (544)
                        ..|.++..+..+.+.+.-.|   +..-|.++|.+.
T Consensus       183 --~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~a  217 (289)
T KOG3060|consen  183 --IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERA  217 (289)
T ss_pred             --cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence              22334444455555544333   344455555554

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

Probab=98.75  E-value=1.3e-05  Score=67.32  Aligned_cols=114  Identities=18%  Similarity=0.183  Sum_probs=48.0

Q ss_pred             HHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----CCchH
Q 044352          327 DMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSH----GGLVE  402 (544)
Q Consensus       327 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~  402 (544)
                      ..|+..|++++|.+......  +......=+..+.+..+.+-|...+++|.+-   .+..|++.|..++.+    .+.+.
T Consensus       116 ~i~~~~~~~deAl~~~~~~~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~q  190 (299)
T KOG3081|consen  116 IIYMHDGDFDEALKALHLGE--NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQ  190 (299)
T ss_pred             HHhhcCCChHHHHHHHhccc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhh
Confidence            34444555555555544422  1122222222333444445555555555441   233344444443332    22344


Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhC
Q 044352          403 KGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQV  447 (544)
Q Consensus       403 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  447 (544)
                      .|.-+|+++.+  ..+|+..+.+....+....|++++|..+++.+
T Consensus       191 dAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~ea  233 (299)
T KOG3081|consen  191 DAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEA  233 (299)
T ss_pred             hHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHH
Confidence            44555555443  23444444444444444444444444444443

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

Probab=98.73  E-value=8.2e-06  Score=68.55  Aligned_cols=243  Identities=11%  Similarity=0.062  Sum_probs=147.6

Q ss_pred             hccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHH
Q 044352          190 CNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEAL  269 (544)
Q Consensus       190 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  269 (544)
                      .-.|++..++..-......  +-+...-..+.++|...|.+.....   ++.... .|.......+......-++.+.-+
T Consensus        19 fY~Gnyq~~ine~~~~~~~--~~~~e~d~y~~raylAlg~~~~~~~---eI~~~~-~~~lqAvr~~a~~~~~e~~~~~~~   92 (299)
T KOG3081|consen   19 FYLGNYQQCINEAEKFSSS--KTDVELDVYMYRAYLALGQYQIVIS---EIKEGK-ATPLQAVRLLAEYLELESNKKSIL   92 (299)
T ss_pred             HHhhHHHHHHHHHHhhccc--cchhHHHHHHHHHHHHccccccccc---cccccc-CChHHHHHHHHHHhhCcchhHHHH
Confidence            3345555555544443322  1223333334455666665543322   222211 344444444444444444433333


Q ss_pred             -HHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc
Q 044352          270 -KLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK  348 (544)
Q Consensus       270 -~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  348 (544)
                       ++.+.+.......+......-...|+..+++++|.+......      +......-+.++.+..+.+.|...++.|.+-
T Consensus        93 ~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i  166 (299)
T KOG3081|consen   93 ASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI  166 (299)
T ss_pred             HHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence             344444444334444444445556778888888887776521      3444445556677888888898888888874


Q ss_pred             -cHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhH
Q 044352          349 -NVASWNAMIGCYGK----HGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEH  423 (544)
Q Consensus       349 -~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  423 (544)
                       +..+.+.|..++.+    .+.+..|.-+|++|.++ .+|++.+.+..+.++...|++++|..+++....+  ...++.+
T Consensus       167 ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k--d~~dpet  243 (299)
T KOG3081|consen  167 DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK--DAKDPET  243 (299)
T ss_pred             chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc--cCCCHHH
Confidence             34466666666654    45688899999999886 6899999999999999999999999999998874  4455667


Q ss_pred             HHHHHHHHHhcCCHHHHH-HHHHhC
Q 044352          424 YACVVDMLCRSGRMVEAY-DLLRQV  447 (544)
Q Consensus       424 ~~~l~~~~~~~g~~~~A~-~~~~~~  447 (544)
                      ...++-+-...|...++. +.+.++
T Consensus       244 L~Nliv~a~~~Gkd~~~~~r~l~QL  268 (299)
T KOG3081|consen  244 LANLIVLALHLGKDAEVTERNLSQL  268 (299)
T ss_pred             HHHHHHHHHHhCCChHHHHHHHHHH
Confidence            777776666666554443 344444

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

Probab=98.73  E-value=6.2e-06  Score=84.43  Aligned_cols=226  Identities=13%  Similarity=0.096  Sum_probs=165.6

Q ss_pred             CCCHHHHHHHHHHhhccCchHHHHHHHHHHHHc-CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc-c-HHHHH
Q 044352          281 KPNNVTVTGVLQAGGLTGSIQIGREIHALVCRM-GLHI---DVFTGSALIDMYSKCGSLKDARTLFEITRIK-N-VASWN  354 (544)
Q Consensus       281 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~  354 (544)
                      +.....|...|.-....++.+.|+++.+++... ++.-   -..+|.++++.-...|.-+...++|+++.+- + ...|.
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~ 1534 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHL 1534 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHH
Confidence            334556777777777777888888777776653 1111   2346667777777778888888999988863 3 34788


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhc
Q 044352          355 AMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRS  434 (544)
Q Consensus       355 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  434 (544)
                      .|...|.+.+.+++|.++++.|.+. +.-....|...+..+.+.++-+.|..++.++.+...-..........+..-.+.
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhc
Confidence            8999999999999999999999887 556778899999999999999999999999887411112455566677777899


Q ss_pred             CCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC--CCCchhHHHHHHHHHhc-CChHHHH
Q 044352          435 GRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG--LRKPDGFVMLSNICAAD-GEWHEAE  507 (544)
Q Consensus       435 g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~-g~~~~A~  507 (544)
                      |+.+.+..+|+...  .+...+.|+.++..-.++|+.+.++.+|++++.+.  |.....+...=--|.+. |+-..+.
T Consensus      1614 GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE 1691 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVE 1691 (1710)
T ss_pred             CCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHH
Confidence            99999999998874  44467899999999999999999999999999877  44443333332233333 5444333

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

Probab=98.72  E-value=1.2e-05  Score=73.58  Aligned_cols=118  Identities=14%  Similarity=0.143  Sum_probs=75.1

Q ss_pred             HHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC-hhHHHHHHHHHhhcCChHH
Q 044352          394 ACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVT-NSMAGAFRNGCNIHGRRDL  471 (544)
Q Consensus       394 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~g~~~~  471 (544)
                      .+...|+++.|+..++.+..  ..+.|+..+......+.+.|+.++|.+.++++. ..|+ ...+..++.++.+.|++.+
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHHhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHH
Confidence            34455677777777777665  344455555556666777777777777776653 3333 5556666667777777777


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHH
Q 044352          472 AVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIM  513 (544)
Q Consensus       472 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  513 (544)
                      |+.++++....+|++|..|..|+.+|...|+..+|...+.+.
T Consensus       393 ai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         393 AIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             HHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            777777777777777777777777766666555554444333

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

Probab=98.71  E-value=6e-06  Score=83.60  Aligned_cols=234  Identities=9%  Similarity=0.014  Sum_probs=118.2

Q ss_pred             HhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCH-hHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044352          214 QFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDL-VTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQ  292 (544)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  292 (544)
                      ...+..|+..+...+++++|.++.+...+.  .|+. ..|..+...+.+.++.+++.-+  .+               +.
T Consensus        31 ~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~---------------l~   91 (906)
T PRK14720         31 FKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NL---------------ID   91 (906)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hh---------------hh
Confidence            344455555555556666666665554443  2322 2233333344444443333332  11               12


Q ss_pred             HhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHH
Q 044352          293 AGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSS  369 (544)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A  369 (544)
                      ......++.....+...+.+.+  .+..++..++.+|-+.|+.++|..+++++.+   .|+.+.|.+...|... +.++|
T Consensus        92 ~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA  168 (906)
T PRK14720         92 SFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKA  168 (906)
T ss_pred             hcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHH
Confidence            2222223333333333333321  2333555555666666666666666655553   3445555565555555 66666


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 044352          370 IELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPM  449 (544)
Q Consensus       370 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  449 (544)
                      .+++.+....               +...+++..+.++|.++..  ..+.+...+..+.+.....-.            .
T Consensus       169 ~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~--~~~~d~d~f~~i~~ki~~~~~------------~  219 (906)
T PRK14720        169 ITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVH--YNSDDFDFFLRIERKVLGHRE------------F  219 (906)
T ss_pred             HHHHHHHHHH---------------HHhhhcchHHHHHHHHHHh--cCcccchHHHHHHHHHHhhhc------------c
Confidence            6665555442               4444556666666666654  233333333333322221110            1


Q ss_pred             CCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          450 YVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       450 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      ..-..++..+-..|...++++++..+++.+++.+|.|..+...++.+|.
T Consensus       220 ~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        220 TRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             chhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            1122334444456667777888888888888888888888777777776

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

Probab=98.64  E-value=1e-05  Score=74.15  Aligned_cols=150  Identities=13%  Similarity=0.010  Sum_probs=113.7

Q ss_pred             ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHH
Q 044352          348 KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACV  427 (544)
Q Consensus       348 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  427 (544)
                      .....+......+...|.+++|+..++.++.. .+-|+.........+...++.++|.+.++++...  .+........+
T Consensus       304 ~~~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~  380 (484)
T COG4783         304 GGLAAQYGRALQTYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNL  380 (484)
T ss_pred             cchHHHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHH
Confidence            34445555555677788999999999998876 3556667777778888999999999999998863  23336667778


Q ss_pred             HHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHH
Q 044352          428 VDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHE  505 (544)
Q Consensus       428 ~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  505 (544)
                      ..+|.+.|++++|+.+++...  .+.++..|..++.+|...|+..++...+.                 ..|.-.|++++
T Consensus       381 a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~A-----------------E~~~~~G~~~~  443 (484)
T COG4783         381 AQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARA-----------------EGYALAGRLEQ  443 (484)
T ss_pred             HHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHH-----------------HHHHhCCCHHH
Confidence            889999999999999998864  56678889999999999998777766544                 45566677777


Q ss_pred             HHHHHHHHHhcC
Q 044352          506 AENLRKIMKEKN  517 (544)
Q Consensus       506 A~~~~~~~~~~~  517 (544)
                      |+..+....+..
T Consensus       444 A~~~l~~A~~~~  455 (484)
T COG4783         444 AIIFLMRASQQV  455 (484)
T ss_pred             HHHHHHHHHHhc
Confidence            777777776654

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

Probab=98.63  E-value=1.3e-06  Score=69.45  Aligned_cols=116  Identities=9%  Similarity=-0.024  Sum_probs=93.9

Q ss_pred             HHHHHHHcCCCC-CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--
Q 044352          372 LFERMLEEGMRA-NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--  448 (544)
Q Consensus       372 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--  448 (544)
                      .+++++..  .| +......+...+...|++++|.+.++.+...  .+.+...+..++.++...|++++|..++++..  
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45555553  44 4455667777888999999999999998773  45677888899999999999999999998863  


Q ss_pred             CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHH
Q 044352          449 MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFV  491 (544)
Q Consensus       449 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  491 (544)
                      .+.+...+..++..+...|++++|...++++++.+|++.....
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  123 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYSE  123 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHH
Confidence            4556778888899999999999999999999999998766443

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

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.56  E-value=3.2e-05  Score=77.67  Aligned_cols=127  Identities=10%  Similarity=0.098  Sum_probs=59.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--c-cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044352          318 DVFTGSALIDMYSKCGSLKDARTLFEITRI--K-NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSA  394 (544)
Q Consensus       318 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  394 (544)
                      +...+..|..+..+.|.+++|..+++...+  | +......++.++.+.+++++|+..+++..... +-+......+..+
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a~~  163 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEAKS  163 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHHHH
Confidence            344444455555555555555555544442  2 22344444444555555555555555554431 2233344444444


Q ss_pred             HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhC
Q 044352          395 CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQV  447 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  447 (544)
                      +.+.|++++|..+|+++..  ..+.+...+..+..++...|+.++|...|+++
T Consensus       164 l~~~g~~~~A~~~y~~~~~--~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a  214 (694)
T PRK15179        164 WDEIGQSEQADACFERLSR--QHPEFENGYVGWAQSLTRRGALWRARDVLQAG  214 (694)
T ss_pred             HHHhcchHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4455555555555555543  22233444444555555555555555555443

>PF12854 PPR_1: PPR repeat

Probab=98.53  E-value=1.6e-07  Score=52.92  Aligned_cols=32  Identities=44%  Similarity=0.860  Sum_probs=15.2

Q ss_pred             CCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHH
Q 044352          244 GFVPDLVTWNAMISGFAQSKRENEALKLFKGM  275 (544)
Q Consensus       244 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  275 (544)
                      |+.||..+|+.||.+|++.|++++|.++|++|
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            34444444444444444444444444444443

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

Probab=98.53  E-value=4.2e-06  Score=67.10  Aligned_cols=115  Identities=15%  Similarity=0.047  Sum_probs=66.1

Q ss_pred             CCchHHHHHHHHHHHHHhCCC-CchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCCh----hHHHHHHHHHhhcCChHH
Q 044352          398 GGLVEKGLEIFRSMKERYGVK-ISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTN----SMAGAFRNGCNIHGRRDL  471 (544)
Q Consensus       398 ~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~----~~~~~l~~~~~~~g~~~~  471 (544)
                      .++...+...++.+.+.++-. ........+...+...|++++|...|+.+. ..|++    .....++..+...|++++
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            556666666666665531111 012233334455666666666666666653 12222    234455666677777777


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHH
Q 044352          472 AVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIM  513 (544)
Q Consensus       472 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  513 (544)
                      |+..++.. .-.+..+..+..+|.+|.+.|++++|+..|++.
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            77777552 223444566677777777777777777777654

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

Probab=98.52  E-value=2.6e-06  Score=78.84  Aligned_cols=123  Identities=13%  Similarity=0.099  Sum_probs=98.0

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHh
Q 044352          387 TLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCN  464 (544)
Q Consensus       387 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  464 (544)
                      ....++..+...++++.|..+++++.+.   .|+  ....+++.+...++-.+|.+++++..  .+.+...+..-+..+.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            4455566666677888888888888764   233  44557777777788888888887764  3345666666677788


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          465 IHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       465 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      ..++++.|+.+.+++.+..|.+..+|..|+.+|...|++++|+..++.+.
T Consensus       246 ~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999999999999999999999999999999999999998875

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

>PF12854 PPR_1: PPR repeat

Probab=98.52  E-value=1.8e-07  Score=52.76  Aligned_cols=33  Identities=39%  Similarity=0.814  Sum_probs=27.9

Q ss_pred             cCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHh
Q 044352          208 EGLEPNQFTYNAIIASYARRGDSNAAFAFFSRM  240 (544)
Q Consensus       208 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  240 (544)
                      .|+.||..||+.++.+|++.|++++|.++|++|
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            377888888888888888888888888888876

>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=98.50  E-value=3.8e-07  Score=62.43  Aligned_cols=66  Identities=12%  Similarity=0.036  Sum_probs=61.1

Q ss_pred             ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcC-ChHHHHHHHHHHHhcC
Q 044352          452 TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG-EWHEAENLRKIMKEKN  517 (544)
Q Consensus       452 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~  517 (544)
                      +...|..++..+...|++++|+..|+++++++|+++.++..++.++...| ++++|++.+++.++.+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~   68 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLD   68 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Confidence            45678889999999999999999999999999999999999999999999 7999999999988753

...

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

Probab=98.46  E-value=0.0014  Score=61.28  Aligned_cols=448  Identities=12%  Similarity=0.073  Sum_probs=237.7

Q ss_pred             HHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccC
Q 044352           37 ALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCN  112 (544)
Q Consensus        37 ~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~  112 (544)
                      ++-++. |-|.. +|..|++-+... .++++++.++++.   +..+..|...|..-.+.++++....+|.+.+..-.  +
T Consensus        10 ~~rie~nP~di~-sw~~lire~qt~-~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvL--n   85 (656)
T KOG1914|consen   10 RERIEENPYDID-SWSQLIREAQTQ-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVL--N   85 (656)
T ss_pred             HHHHhcCCccHH-HHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh--h
Confidence            334444 77788 999999877665 8999999998876   56677899999999999999999999999886433  4


Q ss_pred             HHHHHHHHHHhhC-CCChH----HHHHHHHHHH-HcCCCC-ChhHHHHHHHHH---------HhCCCHHHHHHHHhhccC
Q 044352          113 KFTFSIVLKACVG-LLDIK----KGKQVHAVAT-QMGFEN-DVSVGNALIDMY---------SKCGLLCSARRVFHGMFE  176 (544)
Q Consensus       113 ~~~~~~ll~~~~~-~~~~~----~a~~~~~~~~-~~~~~~-~~~~~~~l~~~~---------~~~~~~~~A~~~~~~~~~  176 (544)
                      ...|..-+..-.+ .++..    ...+.|+-.. +.|+.+ +..+|+..+..+         ..+.+++...++++++..
T Consensus        86 lDLW~lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~  165 (656)
T KOG1914|consen   86 LDLWKLYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALV  165 (656)
T ss_pred             HhHHHHHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhc
Confidence            5555554443322 22222    2233344333 334333 223455544432         223345555666666543


Q ss_pred             C---Ch-hhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhC--CCCCC--
Q 044352          177 R---DV-VSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAE--GFVPD--  248 (544)
Q Consensus       177 ~---~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~--  248 (544)
                      .   +. ..|+-..                 ....   ..|..|-..++  --+...+..|.++++++...  |+..+  
T Consensus       166 tPm~nlEkLW~DY~-----------------~fE~---~IN~~tarK~i--~e~s~~Ym~AR~~~qel~~lt~GL~r~~~  223 (656)
T KOG1914|consen  166 TPMHNLEKLWKDYE-----------------AFEQ---EINIITARKFI--GERSPEYMNARRVYQELQNLTRGLNRNAP  223 (656)
T ss_pred             CccccHHHHHHHHH-----------------HHHH---HHHHHHHHHHH--HhhCHHHHHHHHHHHHHHHHHhhhcccCC
Confidence            2   11 1121111                 0000   00000000000  00112233333333333211  11100  


Q ss_pred             -------------HhHHHHHHHHHHcCC------C--HHHHHHHHHHHH-HcCCCCCHHHHH-----HHHHHhhccCc--
Q 044352          249 -------------LVTWNAMISGFAQSK------R--ENEALKLFKGML-VSGIKPNNVTVT-----GVLQAGGLTGS--  299 (544)
Q Consensus       249 -------------~~~~~~l~~~~~~~~------~--~~~a~~~~~~~~-~~~~~~~~~~~~-----~l~~~~~~~~~--  299 (544)
                                   ...|-.+|.---..+      .  .....-.+++.+ --+..|+..-..     ..-..+...|+  
T Consensus       224 ~vp~~~T~~e~~qv~~W~n~I~wEksNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~  303 (656)
T KOG1914|consen  224 AVPPKGTKDEIQQVELWKNWIKWEKSNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVP  303 (656)
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHHhcCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccc
Confidence                         011222221110000      0  001111222211 112222221100     00112223333  


Q ss_pred             -----hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHhcCC----ccHHHHHHHHHHHHhcCChH
Q 044352          300 -----IQIGREIHALVCRMGLHIDVFTGSALIDMYSKCG---SLKDARTLFEITRI----KNVASWNAMIGCYGKHGMVD  367 (544)
Q Consensus       300 -----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~  367 (544)
                           .+++..+++...+.-...+..+|..+...--..-   +.+....+++++..    .-..+|..++..-.+..-..
T Consensus       304 ~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlk  383 (656)
T KOG1914|consen  304 DAKSLTDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLK  383 (656)
T ss_pred             cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHH
Confidence                 3455555655554433334444444432221111   24444455554442    22336777787777888899


Q ss_pred             HHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHh
Q 044352          368 SSIELFERMLEEGMRA-NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQ  446 (544)
Q Consensus       368 ~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  446 (544)
                      .|..+|.+..+.+..+ ...+..+++..+|. ++...|.++|+.=.++  +..++......+.-+...|+-..|..+|++
T Consensus       384 aaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk--f~d~p~yv~~YldfL~~lNdd~N~R~LFEr  460 (656)
T KOG1914|consen  384 AARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFER  460 (656)
T ss_pred             HHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHH
Confidence            9999999999987666 55666777776654 6889999999987775  344555667778888899999999999998


Q ss_pred             CCC---CC--ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCc----hhHHHHHHHHHhcCChHHHHHHHHHH
Q 044352          447 VPM---YV--TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKP----DGFVMLSNICAADGEWHEAENLRKIM  513 (544)
Q Consensus       447 ~~~---~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~  513 (544)
                      +..   .+  ....|..++.--...|+...+.++-++....-|.+.    ..-.....-|--.+.+..-..-++.+
T Consensus       461 ~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~elk~l  536 (656)
T KOG1914|consen  461 VLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDELKFL  536 (656)
T ss_pred             HHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHHHhh
Confidence            742   22  346899998888889999999999888877666221    12333444555555555444444433

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

Probab=98.42  E-value=8e-07  Score=59.90  Aligned_cols=59  Identities=19%  Similarity=0.243  Sum_probs=52.9

Q ss_pred             HHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          459 FRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       459 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ++..+...|++++|+..|+++++.+|.++.++..++.++...|++++|+..|+++++..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            55678899999999999999999999999999999999999999999999999998754

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.42  E-value=4.7e-06  Score=64.49  Aligned_cols=95  Identities=12%  Similarity=0.090  Sum_probs=59.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC---chhHHHHH
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP-MYVT----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK---PDGFVMLS  494 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~  494 (544)
                      ++..++..+.+.|++++|.+.|+.+. ..|+    ...+..++.++...|++++|...++.++...|++   +.++..++
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            44455555666666666666666553 1121    2345556666777777777777777777766654   34566677


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcC
Q 044352          495 NICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       495 ~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .++.+.|++++|...++++++..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHC
Confidence            77777777777777777776654

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

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

Probab=98.41  E-value=2.8e-06  Score=62.77  Aligned_cols=95  Identities=13%  Similarity=0.056  Sum_probs=79.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhc
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAAD  500 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  500 (544)
                      .+..++..+...|++++|..+++++.  .+.+...+..++..+...|++++|...++++++..|.++.++..++.++...
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence            35567777888889999998888763  2334467778888888999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHhcC
Q 044352          501 GEWHEAENLRKIMKEKN  517 (544)
Q Consensus       501 g~~~~A~~~~~~~~~~~  517 (544)
                      |++++|...+++..+..
T Consensus        82 ~~~~~a~~~~~~~~~~~   98 (100)
T cd00189          82 GKYEEALEAYEKALELD   98 (100)
T ss_pred             HhHHHHHHHHHHHHccC
Confidence            99999999998887543

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

Probab=98.40  E-value=3.4e-05  Score=61.86  Aligned_cols=126  Identities=12%  Similarity=0.094  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc--hhHHHH
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRAN---EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS--KEHYAC  426 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~  426 (544)
                      .|..++..+ ..++...+...++.+.... +.+   ......+...+...|++++|...|+.+... ...+.  ......
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~   90 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHH
Confidence            344555554 4788888888888888862 333   234445667788899999999999999875 32222  224455


Q ss_pred             HHHHHHhcCCHHHHHHHHHhCCC-CCChhHHHHHHHHHhhcCChHHHHHHHHHHH
Q 044352          427 VVDMLCRSGRMVEAYDLLRQVPM-YVTNSMAGAFRNGCNIHGRRDLAVTMGEEFF  480 (544)
Q Consensus       427 l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  480 (544)
                      +...+...|++++|+..++.... ...+..+...+.++...|++++|+..|++++
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            77888899999999999988652 3345566777788999999999999998864

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

Probab=98.38  E-value=1.6e-05  Score=73.64  Aligned_cols=127  Identities=17%  Similarity=0.090  Sum_probs=108.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 044352          319 VFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHG  398 (544)
Q Consensus       319 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  398 (544)
                      -.....++..+...++++.|..+|+++.+.++.....++..+...++..+|.+++++.+.. .+-+...+......|...
T Consensus       169 NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  169 NYLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSK  247 (395)
T ss_pred             hHHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhc
Confidence            3445566777777899999999999999888777788889998899999999999999975 344677777778889999


Q ss_pred             CchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC
Q 044352          399 GLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP  448 (544)
Q Consensus       399 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  448 (544)
                      ++++.|+.+.+++..  -.|.+..+|..|+.+|...|+++.|+-.++.+|
T Consensus       248 ~~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            999999999999987  345567799999999999999999999999987

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

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

Probab=98.36  E-value=4.3e-06  Score=71.71  Aligned_cols=108  Identities=9%  Similarity=-0.036  Sum_probs=77.0

Q ss_pred             HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCC-ChhHHHHHHHHHhhcCChHHH
Q 044352          395 CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYV-TNSMAGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~g~~~~A  472 (544)
                      ..+.+++++|+..|.++++  -.+-|...|..-..+|.+.|.++.|++-.+... ..| ...+|..|+.+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHH
Confidence            4566777777777777775  334455556666777778888877777776654 333 345777777788888888888


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHhcCChH
Q 044352          473 VTMGEEFFEMGLRKPDGFVMLSNICAADGEWH  504 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  504 (544)
                      ++.|+++++++|+|......|-++-.+.+..+
T Consensus       169 ~~aykKaLeldP~Ne~~K~nL~~Ae~~l~e~~  200 (304)
T KOG0553|consen  169 IEAYKKALELDPDNESYKSNLKIAEQKLNEPK  200 (304)
T ss_pred             HHHHHhhhccCCCcHHHHHHHHHHHHHhcCCC
Confidence            88888888888888877777777666665555

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

Probab=98.36  E-value=2e-06  Score=80.06  Aligned_cols=109  Identities=8%  Similarity=-0.091  Sum_probs=91.2

Q ss_pred             HHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcC
Q 044352          390 SVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHG  467 (544)
Q Consensus       390 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g  467 (544)
                      .-...+...|+++.|+..|.++.+.  .+.+...|..++.+|...|++++|+..++++.  .+.+...+..++.+|...|
T Consensus         7 ~~a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          7 DKAKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC
Confidence            3455667889999999999999874  45567788889999999999999999999874  4446778888899999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhc
Q 044352          468 RRDLAVTMGEEFFEMGLRKPDGFVMLSNICAAD  500 (544)
Q Consensus       468 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  500 (544)
                      ++++|+..|+++++++|.++.....+..+..+.
T Consensus        85 ~~~eA~~~~~~al~l~P~~~~~~~~l~~~~~kl  117 (356)
T PLN03088         85 EYQTAKAALEKGASLAPGDSRFTKLIKECDEKI  117 (356)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            999999999999999999998888776665444

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.35  E-value=8.6e-06  Score=70.40  Aligned_cols=110  Identities=11%  Similarity=0.041  Sum_probs=93.0

Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhc---CChHHHHHHHHHHHHcCCCCchhHH
Q 044352          417 VKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIH---GRRDLAVTMGEEFFEMGLRKPDGFV  491 (544)
Q Consensus       417 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~p~~~~~~~  491 (544)
                      .+.|...|..|+..|...|+.+.|..-|.+..  ..+++..+..++.++...   ....++..+++++++++|.|..+..
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            46788899999999999999999999998874  456677777777765432   3578999999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCceE
Q 044352          492 MLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSR  526 (544)
Q Consensus       492 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  526 (544)
                      .|+..+...|++.+|...|+.|++.....+|..+-
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~  266 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSL  266 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHH
Confidence            99999999999999999999999987666664443

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

Probab=98.33  E-value=4e-07  Score=65.05  Aligned_cols=78  Identities=13%  Similarity=0.162  Sum_probs=51.4

Q ss_pred             cCCHHHHHHHHHhCC-CCC---ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHH
Q 044352          434 SGRMVEAYDLLRQVP-MYV---TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENL  509 (544)
Q Consensus       434 ~g~~~~A~~~~~~~~-~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  509 (544)
                      .|++++|+.+++++. ..|   +...+..++.++.+.|++++|..++++ .+.+|.++.....++.++.+.|++++|+++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            355666666665553 111   344555567777777888888888777 666676667777778888888888888887


Q ss_pred             HHH
Q 044352          510 RKI  512 (544)
Q Consensus       510 ~~~  512 (544)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            765

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.32  E-value=0.0048  Score=61.41  Aligned_cols=68  Identities=18%  Similarity=0.098  Sum_probs=55.9

Q ss_pred             HHHHHHHHHhhcCC---hHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC
Q 044352          455 MAGAFRNGCNIHGR---RDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQP  522 (544)
Q Consensus       455 ~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  522 (544)
                      +.+.++..+.+.++   +-+|+.+++..+..+|.|+.+-..++.+|.-.|-+..|.+.|+.+--++|..+.
T Consensus       438 av~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DT  508 (932)
T KOG2053|consen  438 AVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDT  508 (932)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhcc
Confidence            34566677777665   568889999999999999999999999999999999999999988766665554

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

Probab=98.27  E-value=6.5e-06  Score=70.62  Aligned_cols=90  Identities=17%  Similarity=0.041  Sum_probs=80.7

Q ss_pred             HHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHH
Q 044352          428 VDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHE  505 (544)
Q Consensus       428 ~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  505 (544)
                      +.-+.+.+++.+|+..|.++.  .+.+...|..-+.+|.+.|.++.|++-.+.++.++|....+|..|+.+|...|++++
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            445678899999999999875  455677788888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC
Q 044352          506 AENLRKIMKEKN  517 (544)
Q Consensus       506 A~~~~~~~~~~~  517 (544)
                      |++.|++.++-.
T Consensus       168 A~~aykKaLeld  179 (304)
T KOG0553|consen  168 AIEAYKKALELD  179 (304)
T ss_pred             HHHHHHhhhccC
Confidence            999999987643

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.25  E-value=2.9e-05  Score=69.43  Aligned_cols=273  Identities=11%  Similarity=-0.002  Sum_probs=162.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhhccC
Q 044352          220 IIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPN-NVTVTGVLQAGGLTG  298 (544)
Q Consensus       220 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~  298 (544)
                      ....+.+..++..|+..+....+.. +.+..-|..-+..+...++++++.--.++-++.  .|. .......-+++...+
T Consensus        55 ~gn~~yk~k~Y~nal~~yt~Ai~~~-pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~--kd~~~k~~~r~~~c~~a~~  131 (486)
T KOG0550|consen   55 EGNAFYKQKTYGNALKNYTFAIDMC-PDNASYYSNRAATLMMLGRFEEALGDARQSVRL--KDGFSKGQLREGQCHLALS  131 (486)
T ss_pred             hcchHHHHhhHHHHHHHHHHHHHhC-ccchhhhchhHHHHHHHHhHhhcccchhhheec--CCCccccccchhhhhhhhH
Confidence            4456666677777777777776664 334555555666666667777766555544422  221 223333334444444


Q ss_pred             chHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC-----ccHHHHHHH-HHHHHhcCChHHHHHH
Q 044352          299 SIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI-----KNVASWNAM-IGCYGKHGMVDSSIEL  372 (544)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~l-~~~~~~~g~~~~A~~~  372 (544)
                      +..+|.+.++         +...+           ....+...++.+..     |....|..+ ..++...|++++|...
T Consensus       132 ~~i~A~~~~~---------~~~~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~e  191 (486)
T KOG0550|consen  132 DLIEAEEKLK---------SKQAY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSE  191 (486)
T ss_pred             HHHHHHHHhh---------hhhhh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHH
Confidence            4444444433         11111           11122222222221     112233333 2345567888888887


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhH-------------HHHHHHHHHhcCCHHH
Q 044352          373 FERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEH-------------YACVVDMLCRSGRMVE  439 (544)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------------~~~l~~~~~~~g~~~~  439 (544)
                      --..++.. ..+......-..++...++.+.+...|++...   ..|+...             +..-+.-..+.|++..
T Consensus       192 a~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~---ldpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~  267 (486)
T KOG0550|consen  192 AIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQALR---LDPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRK  267 (486)
T ss_pred             HHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhhc---cChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhH
Confidence            77766642 22222222222334456778888888877653   3444221             1222334567899999


Q ss_pred             HHHHHHhCC-C-----CCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHH
Q 044352          440 AYDLLRQVP-M-----YVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIM  513 (544)
Q Consensus       440 A~~~~~~~~-~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  513 (544)
                      |.+.|.+.. +     .++...|...+.+..+.|+.++|+.-.+++++++|.-..++..-+.++...++|++|.+.++++
T Consensus       268 A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~le~~e~AV~d~~~a  347 (486)
T KOG0550|consen  268 AYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLALEKWEEAVEDYEKA  347 (486)
T ss_pred             HHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999998764 2     3334456666667788899999999999999999988888888999999999999999999998


Q ss_pred             HhcCCC
Q 044352          514 KEKNVQ  519 (544)
Q Consensus       514 ~~~~~~  519 (544)
                      .+..-.
T Consensus       348 ~q~~~s  353 (486)
T KOG0550|consen  348 MQLEKD  353 (486)
T ss_pred             Hhhccc
Confidence            875443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.25  E-value=2.4e-05  Score=60.45  Aligned_cols=106  Identities=8%  Similarity=0.059  Sum_probs=74.9

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHhCC-CCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC----hhHHHHHH
Q 044352          387 TLISVLSACSHGGLVEKGLEIFRSMKERYGV-KISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVT----NSMAGAFR  460 (544)
Q Consensus       387 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~  460 (544)
                      ++..++..+...|++++|...+..+.+...- +.....+..++.++.+.|++++|...|+.+. ..|+    ..++..++
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            4555666677777888888888777664211 1113456667777888888888888887753 1222    45677778


Q ss_pred             HHHhhcCChHHHHHHHHHHHHcCCCCchhHHH
Q 044352          461 NGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVM  492 (544)
Q Consensus       461 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  492 (544)
                      .++...|+.++|...++++++..|+++.+...
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~  115 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAAKLA  115 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhHHHH
Confidence            88889999999999999999999987765543

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.

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

Probab=98.24  E-value=2.3e-05  Score=73.11  Aligned_cols=90  Identities=9%  Similarity=-0.073  Sum_probs=70.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC
Q 044352          356 MIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSG  435 (544)
Q Consensus       356 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  435 (544)
                      ....+...|++++|+..|++++... +.+...+..+..+|...|++++|+..++++...  .+.+...|..++.+|...|
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhC
Confidence            3455677888889999988888862 446677888888888888999999888888763  3446677888888888889


Q ss_pred             CHHHHHHHHHhCC
Q 044352          436 RMVEAYDLLRQVP  448 (544)
Q Consensus       436 ~~~~A~~~~~~~~  448 (544)
                      ++++|...|+++.
T Consensus        85 ~~~eA~~~~~~al   97 (356)
T PLN03088         85 EYQTAKAALEKGA   97 (356)
T ss_pred             CHHHHHHHHHHHH
Confidence            9999988888764

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.21  E-value=0.00038  Score=55.39  Aligned_cols=133  Identities=10%  Similarity=0.029  Sum_probs=103.1

Q ss_pred             CCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC----CCCChhHH
Q 044352          381 MRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP----MYVTNSMA  456 (544)
Q Consensus       381 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~  456 (544)
                      ..|+...-..+..+....|+..+|...|++...- .+..|......+..+....+++..|...++++-    ...++...
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            4677777777888888888888888888888763 446677788888888888888888888887752    22334556


Q ss_pred             HHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          457 GAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       457 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      ..++..+...|++..|+..|+.++.--| .+.....++..+.++|+.++|..-+..+.+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~yp-g~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYP-GPQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCC-CHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            6677888889999999999999988887 578888888889999988888766555543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.21  E-value=2e-05  Score=65.36  Aligned_cols=97  Identities=14%  Similarity=0.090  Sum_probs=74.6

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCC---C-hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHH
Q 044352          421 KEHYACVVDMLCRSGRMVEAYDLLRQVP-MYV---T-NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSN  495 (544)
Q Consensus       421 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~---~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  495 (544)
                      ...+..++..+...|++++|...|+++. ..|   + ...+..++..+...|++++|+..++++++..|.++..+..++.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~  114 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            3456667777777888888888877653 112   1 3567788888999999999999999999999999999999999


Q ss_pred             HHHhcCC--------------hHHHHHHHHHHHhcC
Q 044352          496 ICAADGE--------------WHEAENLRKIMKEKN  517 (544)
Q Consensus       496 ~~~~~g~--------------~~~A~~~~~~~~~~~  517 (544)
                      ++...|+              +++|.++++++.+.+
T Consensus       115 ~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~  150 (172)
T PRK02603        115 IYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLA  150 (172)
T ss_pred             HHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhC
Confidence            9988877              566777777766544

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.17  E-value=0.0012  Score=59.51  Aligned_cols=261  Identities=8%  Similarity=-0.126  Sum_probs=154.2

Q ss_pred             hHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHh
Q 044352           15 YLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAF   90 (544)
Q Consensus        15 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~   90 (544)
                      ........+.+..++..|+..+..+++. |.+.. .|..-+..+...|++++|..-.+.-.   +..+....-.-+++..
T Consensus        51 ~~k~~gn~~yk~k~Y~nal~~yt~Ai~~~pd~a~-yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~~~k~~~r~~~c~~a  129 (486)
T KOG0550|consen   51 EAKEEGNAFYKQKTYGNALKNYTFAIDMCPDNAS-YYSNRAATLMMLGRFEEALGDARQSVRLKDGFSKGQLREGQCHLA  129 (486)
T ss_pred             HHHhhcchHHHHhhHHHHHHHHHHHHHhCccchh-hhchhHHHHHHHHhHhhcccchhhheecCCCccccccchhhhhhh
Confidence            3445556677788999999999999999 77766 88888899999999999887765443   2222222223333333


Q ss_pred             cCCHHHHHHHHH---------------HHHhccc-ccCHHHHHHHH-HHhhCCCChHHHHHHHHHHHHcCCCCChhHHHH
Q 044352           91 TGNFQEAIGYFS---------------LMREFIY-RCNKFTFSIVL-KACVGLLDIKKGKQVHAVATQMGFENDVSVGNA  153 (544)
Q Consensus        91 ~~~~~~A~~~~~---------------~~~~~~~-~p~~~~~~~ll-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  153 (544)
                      .++..+|.+.++               ....... +|.-.++..+- ..+.-.|+.+.|.++--.+++.. +.+......
T Consensus       130 ~~~~i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~v  208 (486)
T KOG0550|consen  130 LSDLIEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATNAEALYV  208 (486)
T ss_pred             hHHHHHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cchhHHHHh
Confidence            333333333222               2222111 12223333332 33456788888888877777654 333333333


Q ss_pred             HHHHHHhCCCHHHHHHHHhhccCCChhh---------------HHHHHHHHhccCChhHHHHHHHHHHHc---CCCCCHh
Q 044352          154 LIDMYSKCGLLCSARRVFHGMFERDVVS---------------WTSMISGYCNVSKVDEAVVLFERMKLE---GLEPNQF  215 (544)
Q Consensus       154 l~~~~~~~~~~~~A~~~~~~~~~~~~~~---------------~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~  215 (544)
                      -..++--.++.+.|...|++....++..               |..-..-..+.|++..|.+.|.+.+..   ++.|+..
T Consensus       209 rg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~nak  288 (486)
T KOG0550|consen  209 RGLCLYYNDNADKAINHFQQALRLDPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAK  288 (486)
T ss_pred             cccccccccchHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHH
Confidence            3344555678888888888886644332               222233445677788888888777643   2344455


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 044352          216 TYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVS  278 (544)
Q Consensus       216 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  278 (544)
                      .|........+.|+..+|+.--+...+.+ ..-...|..-..++...++|++|++-|++..+.
T Consensus       289 lY~nra~v~~rLgrl~eaisdc~~Al~iD-~syikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  289 LYGNRALVNIRLGRLREAISDCNEALKID-SSYIKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHhHhhhcccCCchhhhhhhhhhhhcC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            56556666667777777777777766331 001122333345566677777777777776654

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=98.14  E-value=8.3e-06  Score=56.49  Aligned_cols=58  Identities=14%  Similarity=0.030  Sum_probs=52.9

Q ss_pred             HHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 044352          461 NGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNV  518 (544)
Q Consensus       461 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  518 (544)
                      ..|.+.+++++|.+.++++++++|+++..+...+.++.+.|++++|.+.++++++.+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            4678899999999999999999999999999999999999999999999999987654

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

Probab=98.14  E-value=3.5e-06  Score=57.42  Aligned_cols=54  Identities=20%  Similarity=0.338  Sum_probs=46.6

Q ss_pred             hhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          464 NIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       464 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ...|++++|+..|+++++.+|+++.++..++.+|.+.|++++|..+++++....
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~   55 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQD   55 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            467889999999999999999999999999999999999999999998887654

...

>PRK15331 chaperone protein SicA; Provisional

Probab=98.14  E-value=2.9e-05  Score=61.10  Aligned_cols=93  Identities=11%  Similarity=0.067  Sum_probs=78.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcC
Q 044352          424 YACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG  501 (544)
Q Consensus       424 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  501 (544)
                      .......+...|++++|..+|.-+.  ..-+...|..|+.++...+++++|+..|..+..++++||.+....+.++...|
T Consensus        40 iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~  119 (165)
T PRK15331         40 LYAHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMR  119 (165)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhC
Confidence            3344555678899999999988753  45567788888888889999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHhc
Q 044352          502 EWHEAENLRKIMKEK  516 (544)
Q Consensus       502 ~~~~A~~~~~~~~~~  516 (544)
                      +.++|+..|+.++++
T Consensus       120 ~~~~A~~~f~~a~~~  134 (165)
T PRK15331        120 KAAKARQCFELVNER  134 (165)
T ss_pred             CHHHHHHHHHHHHhC
Confidence            999999999988773

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.13  E-value=2.5e-05  Score=64.51  Aligned_cols=94  Identities=14%  Similarity=0.031  Sum_probs=75.2

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCC----ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHH
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYV----TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLS  494 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  494 (544)
                      ....+..++..+...|++++|...|+++. ..+    ...++..++..+...|++++|+..++++++++|.+...+..++
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la  113 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHH
Confidence            34566777778888889999988888763 222    2347888889999999999999999999999999999999999


Q ss_pred             HHHH-------hcCChHHHHHHHHHH
Q 044352          495 NICA-------ADGEWHEAENLRKIM  513 (544)
Q Consensus       495 ~~~~-------~~g~~~~A~~~~~~~  513 (544)
                      .++.       ..|++++|+..+++.
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            8888       888888666655544

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

Probab=98.12  E-value=6.3e-06  Score=55.47  Aligned_cols=61  Identities=20%  Similarity=0.103  Sum_probs=50.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCc
Q 044352          427 VVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKP  487 (544)
Q Consensus       427 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  487 (544)
                      ++..+...|++++|.+.|+++.  .+.+...+..++.++...|++++|+..|+++++.+|++|
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            5667888999999999998874  333577888999999999999999999999999999875

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.05  E-value=0.00028  Score=68.85  Aligned_cols=62  Identities=11%  Similarity=0.124  Sum_probs=31.5

Q ss_pred             hHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          454 SMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       454 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      ..+..++......|++++|...++++++++| +..+|..+|.++...|+.++|.+.++++...
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3344443334444555555555555555555 3445555555555555555555555555443

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

Probab=98.03  E-value=2.3e-05  Score=55.87  Aligned_cols=80  Identities=14%  Similarity=0.152  Sum_probs=33.9

Q ss_pred             CchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCC-ChhHHHHHHHHHhhcCChHHHHHHHH
Q 044352          399 GLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYV-TNSMAGAFRNGCNIHGRRDLAVTMGE  477 (544)
Q Consensus       399 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~  477 (544)
                      |+++.|+.+++++.+.....++...+..++.+|.+.|++++|..++++....+ +......++.++...|++++|+++++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l~   82 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLLKLGKYEEAIKALE   82 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCHHHHHHHHh
Confidence            44555555555554431111123333334555555555555555554422111 12333333445555555555555554


Q ss_pred             H
Q 044352          478 E  478 (544)
Q Consensus       478 ~  478 (544)
                      +
T Consensus        83 ~   83 (84)
T PF12895_consen   83 K   83 (84)
T ss_dssp             H
T ss_pred             c
Confidence            4

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

Probab=98.02  E-value=6.6e-05  Score=55.19  Aligned_cols=94  Identities=13%  Similarity=0.057  Sum_probs=57.5

Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhc
Q 044352          389 ISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIH  466 (544)
Q Consensus       389 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~  466 (544)
                      ..+...+...|++++|...++.+.+.  .+.+...+..++..+...|++++|.+.++...  .+.+...+..++..+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence            33444555566666666666666542  22333455556666666666777766666542  233345666666777777


Q ss_pred             CChHHHHHHHHHHHHcCC
Q 044352          467 GRRDLAVTMGEEFFEMGL  484 (544)
Q Consensus       467 g~~~~A~~~~~~~~~~~p  484 (544)
                      |++++|...++++++..|
T Consensus        82 ~~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          82 GKYEEALEAYEKALELDP   99 (100)
T ss_pred             HhHHHHHHHHHHHHccCC
Confidence            777888877777777665

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.01  E-value=0.00033  Score=68.33  Aligned_cols=143  Identities=10%  Similarity=0.013  Sum_probs=103.8

Q ss_pred             cCCccHHHHHHHHHHHHh--c---CChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcC--------CchHHHHHHHHH
Q 044352          345 TRIKNVASWNAMIGCYGK--H---GMVDSSIELFERMLEEGMRANE-VTLISVLSACSHG--------GLVEKGLEIFRS  410 (544)
Q Consensus       345 ~~~~~~~~~~~l~~~~~~--~---g~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~--------~~~~~a~~~~~~  410 (544)
                      ....+...|...+++...  .   ++...|..+|++.++.  .|+. ..+..+..++...        .++..+.+...+
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            334678889888887544  2   2367899999999995  5654 4555554444322        123344444444


Q ss_pred             HHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchh
Q 044352          411 MKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDG  489 (544)
Q Consensus       411 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  489 (544)
                      .......+.++..+..+...+...|++++|...++++. ..|+..+|..++..+...|+.++|...|++++.++|.++..
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt~  489 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENTL  489 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCchH
Confidence            33321234456778888777788899999999999975 56788889999999999999999999999999999988853

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.01  E-value=0.00027  Score=58.61  Aligned_cols=117  Identities=13%  Similarity=0.064  Sum_probs=82.2

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHH
Q 044352          350 VASWNAMIGCYGKHGMVDSSIELFERMLEEGMRAN--EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACV  427 (544)
Q Consensus       350 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  427 (544)
                      ...+..+...+...|++++|...|++.......+.  ...+..+..++...|++++|...+.+..+.  .+.+...+..+
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l  112 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHH
Confidence            34677777788888888888888888876432222  356777777888888888888888888763  33345666677


Q ss_pred             HHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC
Q 044352          428 VDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK  486 (544)
Q Consensus       428 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  486 (544)
                      +.++...|+...+..-++.+                  ...+++|.+.++++++.+|++
T Consensus       113 g~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~  153 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN  153 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh
Confidence            77777777766555433321                  123788899999999999876

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.98  E-value=1.3e-05  Score=46.02  Aligned_cols=33  Identities=21%  Similarity=0.170  Sum_probs=27.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcccccC
Q 044352           80 MLNWMVMASAFTGNFQEAIGYFSLMREFIYRCN  112 (544)
Q Consensus        80 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~  112 (544)
                      +||.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            688888888888888888888888888888876

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.

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

Probab=97.97  E-value=2.1e-05  Score=53.66  Aligned_cols=65  Identities=11%  Similarity=0.025  Sum_probs=53.5

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcC-ChHHHHHHHHHHHHcCC
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHG-RRDLAVTMGEEFFEMGL  484 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~p  484 (544)
                      ++..|..++..+...|++++|+..|+++.  .+.+...+..++.++...| ++++|++.++++++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            45677778888888888888888888764  4456778888888999998 79999999999999887

...

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.95  E-value=1.6e-05  Score=45.61  Aligned_cols=33  Identities=36%  Similarity=0.850  Sum_probs=20.3

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHHcCCCCC
Q 044352          181 SWTSMISGYCNVSKVDEAVVLFERMKLEGLEPN  213 (544)
Q Consensus       181 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  213 (544)
                      +|++++.+|++.|++++|.++|.+|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            456666666666666666666666666666554

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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.94  E-value=1.9e-05  Score=44.91  Aligned_cols=33  Identities=24%  Similarity=0.218  Sum_probs=25.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhccccc
Q 044352           79 FMLNWMVMASAFTGNFQEAIGYFSLMREFIYRC  111 (544)
Q Consensus        79 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p  111 (544)
                      .+|+.++.++++.|+++.|.++|+.|.+.|++|
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            467777777777777777777777777777766

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.94  E-value=4.4e-05  Score=59.84  Aligned_cols=93  Identities=5%  Similarity=-0.077  Sum_probs=60.7

Q ss_pred             HHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhC
Q 044352           49 LKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVG  125 (544)
Q Consensus        49 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~  125 (544)
                      ....++..+...|++++|..+|+-+.   +.+..-|..|..++-..|++++|++.|......++ -|+..+..+..++..
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~  115 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHH
Confidence            45556666666777777777776654   45555666666666777777777777777666542 255566666666677


Q ss_pred             CCChHHHHHHHHHHHHc
Q 044352          126 LLDIKKGKQVHAVATQM  142 (544)
Q Consensus       126 ~~~~~~a~~~~~~~~~~  142 (544)
                      .|+.+.|.+.|+..+..
T Consensus       116 lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        116 CDNVCYAIKALKAVVRI  132 (157)
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            77777777777766654

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.93  E-value=0.0038  Score=59.69  Aligned_cols=85  Identities=19%  Similarity=0.169  Sum_probs=40.4

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCChh-----------
Q 044352          387 TLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTNS-----------  454 (544)
Q Consensus       387 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~-----------  454 (544)
                      ++..+...+.+...+.-|-++|.++-.          ...++......+++++|..+-++.+ ..++..           
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD----------~ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~D  818 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGD----------LKSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAEND  818 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhcc----------HHHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhh
Confidence            333344444444555555555555422          1234455555566666666555554 111111           


Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHHHHH
Q 044352          455 MAGAFRNGCNIHGRRDLAVTMGEEFFE  481 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  481 (544)
                      -+...-.+|.+.|+..+|..+++++..
T Consensus       819 rFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  819 RFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence            011111255566677777777766543

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.92  E-value=2e-05  Score=44.77  Aligned_cols=33  Identities=36%  Similarity=0.615  Sum_probs=19.9

Q ss_pred             hHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC
Q 044352          250 VTWNAMISGFAQSKRENEALKLFKGMLVSGIKP  282 (544)
Q Consensus       250 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  282 (544)
                      .+|+.++.+|.+.|+++.|.++|++|.+.|++|
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            356666666666666666666666666655554

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

Probab=97.91  E-value=1.5e-05  Score=54.18  Aligned_cols=61  Identities=18%  Similarity=0.137  Sum_probs=30.6

Q ss_pred             hcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHH
Q 044352          433 RSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVML  493 (544)
Q Consensus       433 ~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  493 (544)
                      ..|++++|.++|+++.  .+.+...+..++.+|.+.|++++|..+++++...+|+++..+..+
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~l~   65 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQLL   65 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            3444555555554442  233444555555555555555555555555555555554444443

...

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.90  E-value=1.1e-05  Score=45.33  Aligned_cols=34  Identities=18%  Similarity=0.329  Sum_probs=31.5

Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHH
Q 044352          475 MGEEFFEMGLRKPDGFVMLSNICAADGEWHEAEN  508 (544)
Q Consensus       475 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  508 (544)
                      .|+++++++|+|+.+|..++.+|...|++++|++
T Consensus         1 ~y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    1 CYKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             ChHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            3789999999999999999999999999999963

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.90  E-value=0.00012  Score=64.34  Aligned_cols=85  Identities=13%  Similarity=0.061  Sum_probs=42.9

Q ss_pred             HhcCCHHHHHHHHHhCC-CCCC----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC---chhHHHHHHHHHhcCCh
Q 044352          432 CRSGRMVEAYDLLRQVP-MYVT----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK---PDGFVMLSNICAADGEW  503 (544)
Q Consensus       432 ~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~  503 (544)
                      .+.|++++|...|+... ..|+    +.++..++.+|...|++++|...|+.+++..|++   +.++..++.++...|++
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            33445555554444432 1121    2344555555555566666666666665555443   33444445555555666


Q ss_pred             HHHHHHHHHHHhc
Q 044352          504 HEAENLRKIMKEK  516 (544)
Q Consensus       504 ~~A~~~~~~~~~~  516 (544)
                      ++|..+|+++++.
T Consensus       234 ~~A~~~~~~vi~~  246 (263)
T PRK10803        234 AKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666555543

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.90  E-value=0.025  Score=54.17  Aligned_cols=405  Identities=11%  Similarity=0.030  Sum_probs=218.3

Q ss_pred             CchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHH-HHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHH
Q 044352           77 NVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKF-TFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALI  155 (544)
Q Consensus        77 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  155 (544)
                      +...|..++.---...+.+.+..++..++..  .|-.. -|......=.+.|..+.+..+|++.+.. ++.+...|....
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~  120 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYL  120 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHH
Confidence            3345555555444444445555666666642  34333 2333333335677777788888777754 556666666555


Q ss_pred             HHHH-hCCCHHHHHHHHhhccC------CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHH---
Q 044352          156 DMYS-KCGLLCSARRVFHGMFE------RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYA---  225 (544)
Q Consensus       156 ~~~~-~~~~~~~A~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---  225 (544)
                      ..+. ..|+.+.....|+....      .+...|...+..-..++++.....+|+++++.   | ...|+..-..|.   
T Consensus       121 ~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei---P-~~~~~~~f~~f~~~l  196 (577)
T KOG1258|consen  121 AFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI---P-LHQLNRHFDRFKQLL  196 (577)
T ss_pred             HHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh---h-hhHhHHHHHHHHHHH
Confidence            5443 34666677777776644      34556777777777777788888888877743   1 222222222211   


Q ss_pred             hc------CChHHHHHHHHHhhhC-C---CCCCHhHHHHHHHHHH-cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHh
Q 044352          226 RR------GDSNAAFAFFSRMTAE-G---FVPDLVTWNAMISGFA-QSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAG  294 (544)
Q Consensus       226 ~~------~~~~~a~~~~~~~~~~-~---~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  294 (544)
                      ..      ...+++.++-...... .   ..+....+..-+.--. ..+..+++.....+...           .--..+
T Consensus       197 ~~~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~-----------~~~~~~  265 (577)
T KOG1258|consen  197 NQNEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIVS-----------IHEKVY  265 (577)
T ss_pred             hcCChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHHH-----------HHHHHH
Confidence            11      1122222221111110 0   0000111111110000 01111111111111000           000011


Q ss_pred             hccCchHHHHHHHHHHHHc---CC----CCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCcc---HHHHHHHHHHHHhcC
Q 044352          295 GLTGSIQIGREIHALVCRM---GL----HIDVFTGSALIDMYSKCGSLKDARTLFEITRIKN---VASWNAMIGCYGKHG  364 (544)
Q Consensus       295 ~~~~~~~~a~~~~~~~~~~---~~----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~g  364 (544)
                      .........+..++.-...   .+    .+....|...+..-...|+.+.+.-+|++...|-   ...|-..+.-....|
T Consensus       266 ~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~  345 (577)
T KOG1258|consen  266 QKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSG  345 (577)
T ss_pred             HhhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcC
Confidence            1111112222222222221   11    1234567777777788999999999999888653   346666666666679


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHH---
Q 044352          365 MVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAY---  441 (544)
Q Consensus       365 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~---  441 (544)
                      +.+-|..++.+..+--++..+.+-..-...+-..|+++.|..+++.+.+.  .+.-...-..-+....+.|..+.+.   
T Consensus       346 ~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e--~pg~v~~~l~~~~~e~r~~~~~~~~~~~  423 (577)
T KOG1258|consen  346 DVSLANNVLARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESE--YPGLVEVVLRKINWERRKGNLEDANYKN  423 (577)
T ss_pred             chhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhh--CCchhhhHHHHHhHHHHhcchhhhhHHH
Confidence            99999988888777544434443333334455678999999999999885  3222333334455567888888887   


Q ss_pred             HHHHhCC-CCCChhHH----HHHHH-HHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcC
Q 044352          442 DLLRQVP-MYVTNSMA----GAFRN-GCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG  501 (544)
Q Consensus       442 ~~~~~~~-~~~~~~~~----~~l~~-~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  501 (544)
                      +++.... ...+....    ....+ .+...++.+.|..++.++.+..|++...|..+.....-.+
T Consensus       424 ~l~s~~~~~~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  424 ELYSSIYEGKENNGILEKLYVKFARLRYKIREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHHhcccccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            5555442 22222222    22222 3446789999999999999999999999999988877665

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

Probab=97.89  E-value=0.00053  Score=61.65  Aligned_cols=135  Identities=10%  Similarity=0.093  Sum_probs=100.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 044352          351 ASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSA-CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVD  429 (544)
Q Consensus       351 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  429 (544)
                      .+|..++....+.+..+.|..+|.+..+. ...+..+|...+.. +...++.+.|..+|+...+.  ++.+...|...+.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~-~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD-KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC-CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence            36777888888888899999999999854 24456666666655 33356777799999999885  4567778888899


Q ss_pred             HHHhcCCHHHHHHHHHhCC-CCC----ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch
Q 044352          430 MLCRSGRMVEAYDLLRQVP-MYV----TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD  488 (544)
Q Consensus       430 ~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  488 (544)
                      .+...|+.+.|..+|++.. .-+    ....|..++..-.+.|+.+...++.+++.+..|++..
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~~  142 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDNS  142 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-H
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhhH
Confidence            9999999999999999874 222    2347888888888999999999999999998886443

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.

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

Probab=97.88  E-value=0.023  Score=55.09  Aligned_cols=61  Identities=7%  Similarity=-0.053  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHH
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEE-GMRANEVTLISVLSACSHGGLVEKGLEIFRSMK  412 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  412 (544)
                      .+..|.+-....|..+.|+..--.+.+. .+-|....|..+.-+-+....+...-+.|-++.
T Consensus      1023 HFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raFGtCSKAfmkLe 1084 (1189)
T KOG2041|consen 1023 HFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAFGTCSKAFMKLE 1084 (1189)
T ss_pred             HHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhhhhhHHHHHHHH
Confidence            3444555556677888777765444432 255666777777666665555555555555543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.87  E-value=7.3e-05  Score=68.99  Aligned_cols=67  Identities=15%  Similarity=0.005  Sum_probs=49.6

Q ss_pred             CCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchh---HHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          450 YVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDG---FVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       450 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      +.+...++.++.+|...|++++|+..|+++++++|+++.+   |..++.+|...|+.++|+..++++++.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3445677777777777777777777777777777777643   777777777777777777777777764

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.87  E-value=0.00023  Score=53.93  Aligned_cols=86  Identities=21%  Similarity=-0.006  Sum_probs=43.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHhCC----CCC-ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC---CchhHHHHHHHHH
Q 044352          427 VVDMLCRSGRMVEAYDLLRQVP----MYV-TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR---KPDGFVMLSNICA  498 (544)
Q Consensus       427 l~~~~~~~g~~~~A~~~~~~~~----~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~~l~~~~~  498 (544)
                      ...++...|+.++|+.+|++..    ..+ ....+..++..+...|++++|+.++++.+...|+   +......++.++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            3344444555555555554432    000 1223444555555666666666666666655554   4444444555566


Q ss_pred             hcCChHHHHHHHHH
Q 044352          499 ADGEWHEAENLRKI  512 (544)
Q Consensus       499 ~~g~~~~A~~~~~~  512 (544)
                      ..|+.++|++.+-.
T Consensus        87 ~~gr~~eAl~~~l~  100 (120)
T PF12688_consen   87 NLGRPKEALEWLLE  100 (120)
T ss_pred             HCCCHHHHHHHHHH
Confidence            66666666655433

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.83  E-value=3.9e-05  Score=46.52  Aligned_cols=42  Identities=14%  Similarity=0.154  Sum_probs=38.4

Q ss_pred             hHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHH
Q 044352          454 SMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSN  495 (544)
Q Consensus       454 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  495 (544)
                      .++..++.+|...|++++|+++|+++++.+|+|+.++..++.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            467788999999999999999999999999999999988875

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.82  E-value=0.0017  Score=58.76  Aligned_cols=93  Identities=19%  Similarity=0.114  Sum_probs=46.8

Q ss_pred             HHHHhcC-CchHHHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHhcCCHHHHHHHHHhCC----CCC----Ch-hHHH
Q 044352          392 LSACSHG-GLVEKGLEIFRSMKERYGVKIS----KEHYACVVDMLCRSGRMVEAYDLLRQVP----MYV----TN-SMAG  457 (544)
Q Consensus       392 ~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~----~~-~~~~  457 (544)
                      ...|... |+++.|++.|++..+.+.....    ..++..++..+.+.|++++|.++|+++.    ..+    +. ..+.
T Consensus       121 A~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l  200 (282)
T PF14938_consen  121 AEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFL  200 (282)
T ss_dssp             HHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHH
Confidence            3345555 6666666666665543221111    2344555666667777777777766542    011    11 1222


Q ss_pred             HHHHHHhhcCChHHHHHHHHHHHHcCC
Q 044352          458 AFRNGCNIHGRRDLAVTMGEEFFEMGL  484 (544)
Q Consensus       458 ~l~~~~~~~g~~~~A~~~~~~~~~~~p  484 (544)
                      ..+-++...||...|...+++....+|
T Consensus       201 ~a~l~~L~~~D~v~A~~~~~~~~~~~~  227 (282)
T PF14938_consen  201 KAILCHLAMGDYVAARKALERYCSQDP  227 (282)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHGTTST
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            233345556777777777777776665

>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=0.00042  Score=64.75  Aligned_cols=74  Identities=18%  Similarity=0.253  Sum_probs=34.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 044352          218 NAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVL  291 (544)
Q Consensus       218 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  291 (544)
                      .++++.|...|..+.++.++..=..-|+-||..+++.|+..+.+.|++..|.++...|..++...+..|....+
T Consensus       107 ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l  180 (429)
T PF10037_consen  107 HALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALAL  180 (429)
T ss_pred             HHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHH
Confidence            34444444444444444444444444444444444444444444444444444444444444333333333333

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 [].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.81  E-value=0.00016  Score=62.69  Aligned_cols=99  Identities=13%  Similarity=-0.007  Sum_probs=59.1

Q ss_pred             ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcC---CHHHHHHHHHHHHhcccccCHHHH
Q 044352           43 DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTG---NFQEAIGYFSLMREFIYRCNKFTF  116 (544)
Q Consensus        43 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~p~~~~~  116 (544)
                      |.|.. -|..|+.+|...|+++.|...|.+..   ++|+..+..+..++..+.   ...++..+|++++..+. -|..+.
T Consensus       153 P~d~e-gW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~-~~iral  230 (287)
T COG4235         153 PGDAE-GWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDP-ANIRAL  230 (287)
T ss_pred             CCCch-hHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCC-ccHHHH
Confidence            55555 66666667666666666666666554   555666666555554332   34566666766666321 134445


Q ss_pred             HHHHHHhhCCCChHHHHHHHHHHHHcC
Q 044352          117 SIVLKACVGLLDIKKGKQVHAVATQMG  143 (544)
Q Consensus       117 ~~ll~~~~~~~~~~~a~~~~~~~~~~~  143 (544)
                      ..+...+...|++.+|...|+.|.+..
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            555555666677777777777776664

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.80  E-value=0.0002  Score=64.17  Aligned_cols=282  Identities=15%  Similarity=0.150  Sum_probs=132.3

Q ss_pred             HHHHhcCChHHHHHHHHHhhhCCCCCCH----hHHHHHHHHHHcCCCHHHHHHHHHHHH--Hc--CCCC-CHHHHHHHHH
Q 044352          222 ASYARRGDSNAAFAFFSRMTAEGFVPDL----VTWNAMISGFAQSKRENEALKLFKGML--VS--GIKP-NNVTVTGVLQ  292 (544)
Q Consensus       222 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~--~~~~-~~~~~~~l~~  292 (544)
                      .-+++.|+......+|+...+.| ..|.    ..|..|..+|.-.+++++|+++-..=+  ..  |-+. ...+-..+..
T Consensus        25 ERLck~gdcraGv~ff~aA~qvG-TeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGN  103 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVG-TEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGN  103 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhc-chHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccc
Confidence            45788899999999999988877 3343    346667777777888888887654311  11  1110 1112223333


Q ss_pred             HhhccCchHHHHHHHHH----HHHcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChH
Q 044352          293 AGGLTGSIQIGREIHAL----VCRMGLH-IDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVD  367 (544)
Q Consensus       293 ~~~~~~~~~~a~~~~~~----~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  367 (544)
                      .+-..|.+++|...-.+    ..+.|-. ....++..+...|...|+.-....--+.      -.++.=+.     ..++
T Consensus       104 tlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~------g~f~~ev~-----~al~  172 (639)
T KOG1130|consen  104 TLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEK------GAFNAEVT-----SALE  172 (639)
T ss_pred             hhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhc------ccccHHHH-----HHHH
Confidence            34445556665543322    2222211 1123344444455444321100000000      00000000     0111


Q ss_pred             HHHHHHHHHHH----cCCC-CCHHHHHHHHHHHhcCCchHHHHHHHHHH---HHHhCCCC-chhHHHHHHHHHHhcCCHH
Q 044352          368 SSIELFERMLE----EGMR-ANEVTLISVLSACSHGGLVEKGLEIFRSM---KERYGVKI-SKEHYACVVDMLCRSGRMV  438 (544)
Q Consensus       368 ~A~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~~~~~~-~~~~~~~l~~~~~~~g~~~  438 (544)
                      .|.++|.+-++    .|-. .....|..+...|.-.|+++.|+...+.-   .+.+|-.. ....+..+..++.-.|+++
T Consensus       173 ~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe  252 (639)
T KOG1130|consen  173 NAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFE  252 (639)
T ss_pred             HHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccH
Confidence            22222222111    1100 01123444444445556666666554432   12223221 2334555666666666666


Q ss_pred             HHHHHHHhCC--------CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC------CCCchhHHHHHHHHHhcCChH
Q 044352          439 EAYDLLRQVP--------MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG------LRKPDGFVMLSNICAADGEWH  504 (544)
Q Consensus       439 ~A~~~~~~~~--------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~  504 (544)
                      .|.+.|+...        ......+.+++++.|.-..++++|+.++.+-+.+-      .....++..|+.++...|..+
T Consensus       253 ~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~  332 (639)
T KOG1130|consen  253 LAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHR  332 (639)
T ss_pred             hHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHH
Confidence            6666665421        11223344556666666666666666666544422      123345666666666666666


Q ss_pred             HHHHHHHHHHh
Q 044352          505 EAENLRKIMKE  515 (544)
Q Consensus       505 ~A~~~~~~~~~  515 (544)
                      +|+.+.+.-++
T Consensus       333 kAl~fae~hl~  343 (639)
T KOG1130|consen  333 KALYFAELHLR  343 (639)
T ss_pred             HHHHHHHHHHH
Confidence            66666555543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.79  E-value=0.00063  Score=56.16  Aligned_cols=62  Identities=11%  Similarity=0.081  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRA--NEVTLISVLSACSHGGLVEKGLEIFRSMKE  413 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  413 (544)
                      .|..++..+...|++++|+..|++.......+  ...++..+...+...|++++|+..+++...
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45555556666666666666666665532111  123455555566666666666666666554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.76  E-value=0.0071  Score=54.71  Aligned_cols=129  Identities=12%  Similarity=0.180  Sum_probs=56.2

Q ss_pred             HHHHhc-CChHHHHHHHHHhhhC----CCCC--CHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC-----CHH-HHH
Q 044352          222 ASYARR-GDSNAAFAFFSRMTAE----GFVP--DLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKP-----NNV-TVT  288 (544)
Q Consensus       222 ~~~~~~-~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~-~~~  288 (544)
                      ..|... |+++.|++.|++..+.    | .+  -...+..+...+.+.|++++|.++|+++.......     +.. .+.
T Consensus       122 ~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l  200 (282)
T PF14938_consen  122 EIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFL  200 (282)
T ss_dssp             HHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHH
Confidence            344444 5555555555554321    1 11  12234445556666666666766666665432111     111 122


Q ss_pred             HHHHHhhccCchHHHHHHHHHHHHcC--CCCC--HHHHHHHHHHHHh--cCCHHHHHHHHHhcCCccHH
Q 044352          289 GVLQAGGLTGSIQIGREIHALVCRMG--LHID--VFTGSALIDMYSK--CGSLKDARTLFEITRIKNVA  351 (544)
Q Consensus       289 ~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~--~~~~~~l~~~~~~--~~~~~~A~~~~~~~~~~~~~  351 (544)
                      ..+-++...||...|...++......  +..+  ......++.++-.  ...++.+..-|+.+.+.|..
T Consensus       201 ~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~ld~w  269 (282)
T PF14938_consen  201 KAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSISRLDNW  269 (282)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS---HH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCccHHH
Confidence            23334444556666666665554432  1111  2334445555543  23455666666666655543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.76  E-value=0.0083  Score=48.05  Aligned_cols=140  Identities=12%  Similarity=-0.034  Sum_probs=76.9

Q ss_pred             hcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHH
Q 044352           90 FTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARR  169 (544)
Q Consensus        90 ~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  169 (544)
                      ..=|++....-..+-..  +.|+...-..+..+..+.|+..+|...|++...--+..|....-.+.++....+++..|..
T Consensus        68 q~ldP~R~~Rea~~~~~--~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~  145 (251)
T COG4700          68 QKLDPERHLREATEELA--IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQ  145 (251)
T ss_pred             HhcChhHHHHHHHHHHh--hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHH
Confidence            33344444333333332  3455555556666666667777777777666655455566666666666666666666666


Q ss_pred             HHhhccC-----CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHH
Q 044352          170 VFHGMFE-----RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAA  233 (544)
Q Consensus       170 ~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  233 (544)
                      .++++.+     +++.....+.+.+...|.+.+|..-|+.....  -|+...-......+.+.|+.+++
T Consensus       146 tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea  212 (251)
T COG4700         146 TLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREA  212 (251)
T ss_pred             HHHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHH
Confidence            6666643     23334445556666666666666666666554  33333333333344455544444

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.75  E-value=0.035  Score=51.20  Aligned_cols=136  Identities=10%  Similarity=0.101  Sum_probs=79.6

Q ss_pred             hhccchhhhhhHHhHHHhhc-ccchh-----hHHHHHHHHhhcCCChHHHHHHhccCC--CCCchhHHHHHHH--HHhcC
Q 044352           23 CMKSKALRQGKQVHALLCTN-DLNIF-----SLKSKLVGVYAGCGDVNSARLVFDKIP--NPNVFMLNWMVMA--SAFTG   92 (544)
Q Consensus        23 ~~~~g~~~~A~~~~~~~~~~-~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~--~~~~~   92 (544)
                      +-+++++.+|..+|.++.+. ..++.     -.-..++++|.. ++.+.-...+....  .+ ...|..+..+  +.+.+
T Consensus        16 Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~~-~s~~l~LF~~L~~Y~~k   93 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQFG-KSAYLPLFKALVAYKQK   93 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHhh
Confidence            45889999999999999988 43322     033456666654 33333333333332  12 3345555443  45788


Q ss_pred             CHHHHHHHHHHHHhc--cccc------------CHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCC----CCChhHHHHH
Q 044352           93 NFQEAIGYFSLMREF--IYRC------------NKFTFSIVLKACVGLLDIKKGKQVHAVATQMGF----ENDVSVGNAL  154 (544)
Q Consensus        93 ~~~~A~~~~~~~~~~--~~~p------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l  154 (544)
                      .+.+|++.+......  +..|            |-..=+..+..+...|++.++..+++++...=+    .-+..+|+.+
T Consensus        94 ~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~  173 (549)
T PF07079_consen   94 EYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRA  173 (549)
T ss_pred             hHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHH
Confidence            899999888877654  2222            111113344556677888887777777665432    3566677765


Q ss_pred             HHHHHh
Q 044352          155 IDMYSK  160 (544)
Q Consensus       155 ~~~~~~  160 (544)
                      +-.+++
T Consensus       174 vlmlsr  179 (549)
T PF07079_consen  174 VLMLSR  179 (549)
T ss_pred             HHHHhH
Confidence            555544

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

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

Probab=97.72  E-value=0.00083  Score=48.84  Aligned_cols=74  Identities=22%  Similarity=0.389  Sum_probs=40.8

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhCCC-CCCHhHHHHHHHHHHcCC--------CHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 044352          221 IASYARRGDSNAAFAFFSRMTAEGF-VPDLVTWNAMISGFAQSK--------RENEALKLFKGMLVSGIKPNNVTVTGVL  291 (544)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~l~  291 (544)
                      |..+...+++.....+|+.++..|+ .|+..+|+.++.+.++..        +.-..+.+|++|+..+++|+..+|+.++
T Consensus        32 I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl  111 (120)
T PF08579_consen   32 INSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVL  111 (120)
T ss_pred             HHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHH
Confidence            3344444555555666666665555 556666665555544432        1224555666666666666666666665


Q ss_pred             HHh
Q 044352          292 QAG  294 (544)
Q Consensus       292 ~~~  294 (544)
                      ..+
T Consensus       112 ~~L  114 (120)
T PF08579_consen  112 GSL  114 (120)
T ss_pred             HHH
Confidence            544

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 [, , ].

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.72  E-value=0.00061  Score=60.05  Aligned_cols=103  Identities=7%  Similarity=-0.011  Sum_probs=74.7

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCC-chhHHHHHHHHHHhcCCHHHHHHHHHhCC-----CCCChhHHHHHH
Q 044352          387 TLISVLSACSHGGLVEKGLEIFRSMKERYGVKI-SKEHYACVVDMLCRSGRMVEAYDLLRQVP-----MYVTNSMAGAFR  460 (544)
Q Consensus       387 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~l~  460 (544)
                      .|...+....+.|++++|...|+.+.+.+.-.+ .+..+..++.+|...|++++|...|+.+.     .+..+.++..++
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            444444444566888888888888887521111 13567788888888888888888888763     222355677777


Q ss_pred             HHHhhcCChHHHHHHHHHHHHcCCCCchh
Q 044352          461 NGCNIHGRRDLAVTMGEEFFEMGLRKPDG  489 (544)
Q Consensus       461 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  489 (544)
                      .++...|+.++|...|+++++..|++..+
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~yP~s~~a  253 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKYPGTDGA  253 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCCHHH
Confidence            78889999999999999999999976543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.71  E-value=0.00072  Score=51.23  Aligned_cols=107  Identities=9%  Similarity=-0.004  Sum_probs=74.3

Q ss_pred             chHHHHHHHhhccchhhhhhHHhHHHhhc---ccchhhHHHHHHHHhhcCCChHHHHHHhccCC--CCC----chhHHHH
Q 044352           14 NYLDCLLGKCMKSKALRQGKQVHALLCTN---DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP--NPN----VFMLNWM   84 (544)
Q Consensus        14 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~----~~~~~~l   84 (544)
                      .+.+.+..++-..|+.++|+.+|++++..   .+....++..+++.+...|++++|..+|+...  .|+    ......+
T Consensus         2 ~~~~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~   81 (120)
T PF12688_consen    2 RALYELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFL   81 (120)
T ss_pred             chHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHH
Confidence            46677888888899999999999999887   22222377788888888899999999988766  232    2233334


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhh
Q 044352           85 VMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACV  124 (544)
Q Consensus        85 ~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~  124 (544)
                      ..++...|+.++|++.+-....    ++...|..-|..|.
T Consensus        82 Al~L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   82 ALALYNLGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            4566778888888888766554    23335555555543

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

Probab=97.70  E-value=0.00073  Score=49.09  Aligned_cols=78  Identities=17%  Similarity=0.321  Sum_probs=66.3

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHcCC-CCCHhhHHHHHHHHHhcC--------ChHHHHHHHHHhhhCCCCCCHhHHHH
Q 044352          184 SMISGYCNVSKVDEAVVLFERMKLEGL-EPNQFTYNAIIASYARRG--------DSNAAFAFFSRMTAEGFVPDLVTWNA  254 (544)
Q Consensus       184 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~  254 (544)
                      ..|..+...+++.....+|..+++.|+ .|+..+|+.++.+.+++.        .+-..+.+|+.|...+++|+..+|+.
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            345556666999999999999999999 899999999999887653        24467889999999999999999999


Q ss_pred             HHHHHHc
Q 044352          255 MISGFAQ  261 (544)
Q Consensus       255 l~~~~~~  261 (544)
                      ++..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            9988764

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 [, , ].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.69  E-value=0.038  Score=49.92  Aligned_cols=292  Identities=16%  Similarity=0.165  Sum_probs=185.6

Q ss_pred             HHHHHHHHH--hcCChHHHHHHHHHhhhCCCCCCHhHHHHHHH--HHHcCCCHHHHHHHHHHHHHcCCCCCHH--HHHHH
Q 044352          217 YNAIIASYA--RRGDSNAAFAFFSRMTAEGFVPDLVTWNAMIS--GFAQSKRENEALKLFKGMLVSGIKPNNV--TVTGV  290 (544)
Q Consensus       217 ~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l  290 (544)
                      |..|-.++.  -.|+-..|.++-.+..+. +..|....-.++.  +-.-.|+++.|.+-|+.|..   .|...  -+..+
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~---dPEtRllGLRgL  160 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD---DPETRLLGLRGL  160 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc---ChHHHHHhHHHH
Confidence            444444333  346666666665543321 1223333333333  33447888888888888873   22221  23334


Q ss_pred             HHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcC-----CccHH--HHHHHHHHHH--
Q 044352          291 LQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITR-----IKNVA--SWNAMIGCYG--  361 (544)
Q Consensus       291 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-----~~~~~--~~~~l~~~~~--  361 (544)
                      .-...+.|+.+.|.++-....+.. +.-.......+...+..|+|+.|+++++.-.     ++++.  .--.|+.+-.  
T Consensus       161 yleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s  239 (531)
T COG3898         161 YLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMS  239 (531)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHH
Confidence            444467788888888887776654 3346677888889999999999999987443     34332  1122222211  


Q ss_pred             -hcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH
Q 044352          362 -KHGMVDSSIELFERMLEEGMRANEV-TLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVE  439 (544)
Q Consensus       362 -~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  439 (544)
                       -.-+...|...-.+..+  +.|+.. .-.....++.+.|+..++-.+++.+-+.   .|.+..+...  .+.+.|+.. 
T Consensus       240 ~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~---ePHP~ia~lY--~~ar~gdta-  311 (531)
T COG3898         240 LLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA---EPHPDIALLY--VRARSGDTA-  311 (531)
T ss_pred             HhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc---CCChHHHHHH--HHhcCCCcH-
Confidence             12356677777666665  466543 3344566788999999999999998765   5565554322  344556543 


Q ss_pred             HHHHHHhC----C-CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhc-CChHHHHHHHHHH
Q 044352          440 AYDLLRQV----P-MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAAD-GEWHEAENLRKIM  513 (544)
Q Consensus       440 A~~~~~~~----~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~  513 (544)
                       +.-+++.    . .+.+..+...+..+....|++..|..-.+.+....|. ...|..|+.+-... |+-.++...+-+.
T Consensus       312 -~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pr-es~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         312 -LDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPR-ESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             -HHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCch-hhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence             3323222    1 2445667778888889999999999999999999995 67788888887765 9999999999887


Q ss_pred             HhcCCCCCCCce
Q 044352          514 KEKNVQKQPGFS  525 (544)
Q Consensus       514 ~~~~~~~~~~~~  525 (544)
                      ++..  .+|.|+
T Consensus       390 v~AP--rdPaW~  399 (531)
T COG3898         390 VKAP--RDPAWT  399 (531)
T ss_pred             hcCC--CCCccc
Confidence            7643  455554

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.67  E-value=0.0096  Score=52.17  Aligned_cols=54  Identities=9%  Similarity=0.033  Sum_probs=27.7

Q ss_pred             HHHhcCChHHHHHHHHHhhhCCCCCCHh-H---HHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 044352          223 SYARRGDSNAAFAFFSRMTAEGFVPDLV-T---WNAMISGFAQSKRENEALKLFKGMLVS  278 (544)
Q Consensus       223 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~---~~~l~~~~~~~~~~~~a~~~~~~~~~~  278 (544)
                      .+...|++++|.+.|+.+...  -|+.. .   .-.++.++.+.+++++|...+++.++.
T Consensus        41 ~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         41 QKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            334455666666666665544  22221 1   123445556666666666666666544

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

Probab=97.67  E-value=0.043  Score=50.07  Aligned_cols=110  Identities=15%  Similarity=0.125  Sum_probs=77.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc
Q 044352          321 TGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGL  400 (544)
Q Consensus       321 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  400 (544)
                      +.+..+.-+...|+...|.++.....-|+-.-|...+.+++..++|++-..+...      +-++.-|..++.+|.+.|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCC
Confidence            3344455666778888888888888888888888888888888888776665432      2244667888888888888


Q ss_pred             hHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhC
Q 044352          401 VEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQV  447 (544)
Q Consensus       401 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  447 (544)
                      ..+|..++.++.           +..-+..|.++|++.+|.+.--+.
T Consensus       253 ~~eA~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  253 KKEASKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHHHHHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            888887766521           134566778888888887765543

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

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.65  E-value=0.0002  Score=49.43  Aligned_cols=65  Identities=15%  Similarity=0.056  Sum_probs=53.0

Q ss_pred             HHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHH
Q 044352          429 DMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVML  493 (544)
Q Consensus       429 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  493 (544)
                      ..|.+.+++++|.++++.+.  .+.++..+...+.++...|++++|...++++++.+|+++......
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~~   69 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARALR   69 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHHH
Confidence            56778888888888888874  455677788888899999999999999999999999877665543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.63  E-value=0.024  Score=52.13  Aligned_cols=165  Identities=12%  Similarity=0.060  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCCc-------cHHHHHHHHHHHHh---cCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 044352          321 TGSALIDMYSKCGSLKDARTLFEITRIK-------NVASWNAMIGCYGK---HGMVDSSIELFERMLEEGMRANEVTLIS  390 (544)
Q Consensus       321 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~  390 (544)
                      +...++-.|....+++..+++++.+...       .+..-...+-++-+   .|+.++|+.++..+......+++.++..
T Consensus       143 iv~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL  222 (374)
T PF13281_consen  143 IVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGL  222 (374)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHH
Confidence            3445555677777777777777766643       22223334445555   6788888888888665556677777777


Q ss_pred             HHHHHhc---------CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH----HHHHH---HhC-----C-
Q 044352          391 VLSACSH---------GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVE----AYDLL---RQV-----P-  448 (544)
Q Consensus       391 l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~----A~~~~---~~~-----~-  448 (544)
                      +...|-.         ....++|+..|.+.-+   +.|+...--+++..+...|...+    ..++-   ..+     . 
T Consensus       223 ~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe---~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~  299 (374)
T PF13281_consen  223 LGRIYKDLFLESNFTDRESLDKAIEWYRKGFE---IEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSL  299 (374)
T ss_pred             HHHHHHHHHHHcCccchHHHHHHHHHHHHHHc---CCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccc
Confidence            7665521         2236677777766543   34443333333444444443222    22222   111     1 


Q ss_pred             -CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch
Q 044352          449 -MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD  488 (544)
Q Consensus       449 -~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  488 (544)
                       ...+.-.+..++.++.-.|++++|.++++++.++.|+...
T Consensus       300 ~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~W~  340 (374)
T PF13281_consen  300 EKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPAWE  340 (374)
T ss_pred             cccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcchh
Confidence             1223334466777888899999999999999999876443

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

Probab=97.60  E-value=0.0015  Score=61.16  Aligned_cols=124  Identities=13%  Similarity=0.078  Sum_probs=103.0

Q ss_pred             CCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhC--CCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHH
Q 044352          209 GLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAE--GFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVT  286 (544)
Q Consensus       209 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  286 (544)
                      +.+.+......+++.+....+++.+..++.+....  ....-..|.+++++.|...|..+.++.+++.=...|+.||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            44567777888888888888899999998887754  2222234557999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 044352          287 VTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKC  332 (544)
Q Consensus       287 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  332 (544)
                      ++.++..+.+.|++..|.++...|...+...+..++...+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999999999998887777777777666666655

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 [].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.60  E-value=0.031  Score=49.06  Aligned_cols=66  Identities=9%  Similarity=-0.052  Sum_probs=43.7

Q ss_pred             CCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHH-H---HHHHHHHhhCCCChHHHHHHHHHHHHcC
Q 044352           76 PNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKF-T---FSIVLKACVGLLDIKKGKQVHAVATQMG  143 (544)
Q Consensus        76 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~---~~~ll~~~~~~~~~~~a~~~~~~~~~~~  143 (544)
                      .++..+......+...|++++|++.|+.+...-  |+.. .   ...+..++.+.++++.|...+++..+..
T Consensus        30 ~~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~y--P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         30 NPPSEIYATAQQKLQDGNWKQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            344445555666677888888888888887743  3322 1   2344566677888888888888887764

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

Probab=97.59  E-value=0.0007  Score=60.89  Aligned_cols=129  Identities=9%  Similarity=0.009  Sum_probs=102.3

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh-cCCHHHHHHHHHhCC--CCCChhHHHHHHHH
Q 044352          386 VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR-SGRMVEAYDLLRQVP--MYVTNSMAGAFRNG  462 (544)
Q Consensus       386 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  462 (544)
                      .+|..++....+.+..+.|..+|.++.+  ....+..+|...+..-.. .++.+.|..+|+...  .+.+...|..++..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~--~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARK--DKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            3677888888888899999999999974  334456677777666444 566777999999874  56678889999999


Q ss_pred             HhhcCChHHHHHHHHHHHHcCCCCc---hhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          463 CNIHGRRDLAVTMGEEFFEMGLRKP---DGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       463 ~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      +...|+.+.|+.+|++++..-|.+.   ..|..++..-.+.|+.+....+.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999998766544   58899999999999999999999998875

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.

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

Probab=97.55  E-value=0.00011  Score=40.50  Aligned_cols=29  Identities=38%  Similarity=0.911  Sum_probs=16.1

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 044352          181 SWTSMISGYCNVSKVDEAVVLFERMKLEG  209 (544)
Q Consensus       181 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  209 (544)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555444

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

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.54  E-value=0.0012  Score=59.81  Aligned_cols=138  Identities=12%  Similarity=-0.032  Sum_probs=102.0

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC
Q 044352          357 IGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGR  436 (544)
Q Consensus       357 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  436 (544)
                      ...|.+.|++..|...|++....  -.           +...-+.++.... .        ..-..++..+..+|.+.++
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~--l~-----------~~~~~~~ee~~~~-~--------~~k~~~~lNlA~c~lKl~~  272 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSF--LE-----------YRRSFDEEEQKKA-E--------ALKLACHLNLAACYLKLKE  272 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHH--hh-----------ccccCCHHHHHHH-H--------HHHHHHhhHHHHHHHhhhh
Confidence            45677777777777777776552  00           1111111111111 1        1223467788899999999


Q ss_pred             HHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHH-HHHHHHH
Q 044352          437 MVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEA-ENLRKIM  513 (544)
Q Consensus       437 ~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A-~~~~~~~  513 (544)
                      +.+|++..++..  .+++.-+...-+.++...|+++.|+..|+++++++|.|..+-..|+.+-.+..++.+. .++|..|
T Consensus       273 ~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~m  352 (397)
T KOG0543|consen  273 YKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYANM  352 (397)
T ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999998874  5667778888889999999999999999999999999999999999888887776665 7789999


Q ss_pred             Hhc
Q 044352          514 KEK  516 (544)
Q Consensus       514 ~~~  516 (544)
                      ..+
T Consensus       353 F~k  355 (397)
T KOG0543|consen  353 FAK  355 (397)
T ss_pred             hhc
Confidence            764

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

Probab=97.53  E-value=0.00014  Score=40.19  Aligned_cols=29  Identities=31%  Similarity=0.370  Sum_probs=22.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 044352           80 MLNWMVMASAFTGNFQEAIGYFSLMREFI  108 (544)
Q Consensus        80 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  108 (544)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            57777777777777777777777777665

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.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.53  E-value=0.027  Score=47.90  Aligned_cols=137  Identities=9%  Similarity=-0.006  Sum_probs=103.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHh----CCCCchhHHHH
Q 044352          351 ASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERY----GVKISKEHYAC  426 (544)
Q Consensus       351 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~~  426 (544)
                      ...+.++..+.-.|.+.-.+..+.+.++...+.++.....+.+.-.+.|+.+.|...|+...+..    +......+...
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            35567777777888899999999999997555678888899999999999999999999776542    22223333334


Q ss_pred             HHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCc
Q 044352          427 VVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKP  487 (544)
Q Consensus       427 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  487 (544)
                      ....|.-.+++.+|...+.+++  .+.++...+.-+-+..-.|+...|++..+.+.+..|...
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~  320 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHY  320 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccc
Confidence            4445667788999999998886  445555666555566667899999999999999998643

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.53  E-value=0.0023  Score=49.42  Aligned_cols=93  Identities=12%  Similarity=0.049  Sum_probs=66.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCC-----CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchh---HHHHHH
Q 044352          424 YACVVDMLCRSGRMVEAYDLLRQVP-----MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDG---FVMLSN  495 (544)
Q Consensus       424 ~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~---~~~l~~  495 (544)
                      +..-+....+.|++++|.+.|+.+.     .+-...+-..++.+|.+.|++++|+..+++.++++|.++.+   +...|-
T Consensus        13 ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL   92 (142)
T PF13512_consen   13 LYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGL   92 (142)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHH
Confidence            3344455667778888877777763     12234456678889999999999999999999999887753   555555


Q ss_pred             HHHhcCC---------------hHHHHHHHHHHHhc
Q 044352          496 ICAADGE---------------WHEAENLRKIMKEK  516 (544)
Q Consensus       496 ~~~~~g~---------------~~~A~~~~~~~~~~  516 (544)
                      ++.++..               ..+|...|+++++.
T Consensus        93 ~~~~~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~  128 (142)
T PF13512_consen   93 SYYEQDEGSLQSFFRSDRDPTPARQAFRDFEQLVRR  128 (142)
T ss_pred             HHHHHhhhHHhhhcccccCcHHHHHHHHHHHHHHHH
Confidence            5666655               77788888887764

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.53  E-value=0.065  Score=48.48  Aligned_cols=290  Identities=13%  Similarity=0.028  Sum_probs=186.2

Q ss_pred             hHHHHHHHh--hccchhhhhhHHhHHHhhc-ccc--hhhHHHHHHHHhhcCCChHHHHHHhccCC-CCCchh--HHHHHH
Q 044352           15 YLDCLLGKC--MKSKALRQGKQVHALLCTN-DLN--IFSLKSKLVGVYAGCGDVNSARLVFDKIP-NPNVFM--LNWMVM   86 (544)
Q Consensus        15 ~~~~l~~~~--~~~g~~~~A~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~--~~~l~~   86 (544)
                      .|..|...+  +..||-..|.++-.+.-+. ..|  +. ++..-.+.-.-.|++++|.+-|+.|. .|....  ...|.-
T Consensus        84 gyqALStGliAagAGda~lARkmt~~~~~llssDqepL-IhlLeAQaal~eG~~~~Ar~kfeAMl~dPEtRllGLRgLyl  162 (531)
T COG3898          84 GYQALSTGLIAAGAGDASLARKMTARASKLLSSDQEPL-IHLLEAQAALLEGDYEDARKKFEAMLDDPETRLLGLRGLYL  162 (531)
T ss_pred             HHHHHhhhhhhhccCchHHHHHHHHHHHhhhhccchHH-HHHHHHHHHHhcCchHHHHHHHHHHhcChHHHHHhHHHHHH
Confidence            355554443  3667888899988887766 333  33 34444445556799999999999998 333322  333334


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccccc-CHHHHHHHHHHhhCCCChHHHHHHHHHHHHcC-CCCChhH--HHHHHHHHH---
Q 044352           87 ASAFTGNFQEAIGYFSLMREFIYRC-NKFTFSIVLKACVGLLDIKKGKQVHAVATQMG-FENDVSV--GNALIDMYS---  159 (544)
Q Consensus        87 ~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~--~~~l~~~~~---  159 (544)
                      ..-+.|+.+.|.++-+..-..  -| -.-....++...+..|+++.|+++.+.-.... +.++..-  ...|+.+-.   
T Consensus       163 eAqr~GareaAr~yAe~Aa~~--Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~  240 (531)
T COG3898         163 EAQRLGAREAARHYAERAAEK--APQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSL  240 (531)
T ss_pred             HHHhcccHHHHHHHHHHHHhh--ccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHH
Confidence            445789999999988888764  33 34567888888999999999999998776553 3344322  222332211   


Q ss_pred             hCCCHHHHHHHHhhccC--CChhh-HHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHH---
Q 044352          160 KCGLLCSARRVFHGMFE--RDVVS-WTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAA---  233 (544)
Q Consensus       160 ~~~~~~~A~~~~~~~~~--~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a---  233 (544)
                      -..+...|...-.+..+  +|... --.-..++.+.|+..++-.+++.+-+....|+.  .  .+..+.+.|+....   
T Consensus       241 ldadp~~Ar~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~i--a--~lY~~ar~gdta~dRlk  316 (531)
T COG3898         241 LDADPASARDDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDI--A--LLYVRARSGDTALDRLK  316 (531)
T ss_pred             hcCChHHHHHHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHH--H--HHHHHhcCCCcHHHHHH
Confidence            12356666666655544  45432 233457788999999999999999877444443  2  33344566654322   


Q ss_pred             -HHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhc-cCchHHHHHHHHHHH
Q 044352          234 -FAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGL-TGSIQIGREIHALVC  311 (544)
Q Consensus       234 -~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~  311 (544)
                       .+-++.|+    +.+...-..+..+-...|++..|..--+....  ..|....|..+...-.. .||-.++...+.+..
T Consensus       317 Ra~~L~slk----~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav  390 (531)
T COG3898         317 RAKKLESLK----PNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAV  390 (531)
T ss_pred             HHHHHHhcC----ccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHh
Confidence             11223333    34556666777888889999888777666654  36777777777776544 499999999988887


Q ss_pred             HcCCCC
Q 044352          312 RMGLHI  317 (544)
Q Consensus       312 ~~~~~~  317 (544)
                      +..-.|
T Consensus       391 ~APrdP  396 (531)
T COG3898         391 KAPRDP  396 (531)
T ss_pred             cCCCCC
Confidence            764333

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.51  E-value=0.00019  Score=50.38  Aligned_cols=62  Identities=15%  Similarity=0.108  Sum_probs=49.2

Q ss_pred             hHHHHHHHHHhhcCChHHHHHHHHHHHHcC----CCC---chhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          454 SMAGAFRNGCNIHGRRDLAVTMGEEFFEMG----LRK---PDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       454 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----p~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      .++..++..|...|++++|+..|++++++.    +++   ..++..++.++...|++++|++++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            466778888889999999999999988642    222   34688899999999999999999998764

...

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.43  E-value=0.00063  Score=61.47  Aligned_cols=65  Identities=9%  Similarity=-0.056  Sum_probs=60.4

Q ss_pred             hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          453 NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       453 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ..++.+++.++.+.+++.+|++...++++++|+|.-++..-+.+|...|+++.|+..|+++++..
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~  321 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLE  321 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhC
Confidence            34677888899999999999999999999999999999999999999999999999999998754

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.42  E-value=0.019  Score=48.98  Aligned_cols=166  Identities=17%  Similarity=0.094  Sum_probs=87.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCC--c----cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--H--HHHHHHH
Q 044352          324 ALIDMYSKCGSLKDARTLFEITRI--K----NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANE--V--TLISVLS  393 (544)
Q Consensus       324 ~l~~~~~~~~~~~~A~~~~~~~~~--~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~--~~~~l~~  393 (544)
                      .....+...|++.+|...|+.+..  |    -......++.++.+.|+++.|...+++++..  .|+.  .  .+-.+..
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~--yP~~~~~~~A~Y~~g~   87 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL--YPNSPKADYALYMLGL   87 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhhHHHHHHH
Confidence            344445566666666666666553  1    1234455666677777777777777776664  2221  1  1111111


Q ss_pred             HHh-----------cCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHH
Q 044352          394 ACS-----------HGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNG  462 (544)
Q Consensus       394 ~~~-----------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~  462 (544)
                      ++.           ..+....|...|+.+..++   |             ......+|...+..+... -..--..++..
T Consensus        88 ~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~y---P-------------~S~y~~~A~~~l~~l~~~-la~~e~~ia~~  150 (203)
T PF13525_consen   88 SYYKQIPGILRSDRDQTSTRKAIEEFEELIKRY---P-------------NSEYAEEAKKRLAELRNR-LAEHELYIARF  150 (203)
T ss_dssp             HHHHHHHHHH-TT---HHHHHHHHHHHHHHHH----T-------------TSTTHHHHHHHHHHHHHH-HHHHHHHHHHH
T ss_pred             HHHHhCccchhcccChHHHHHHHHHHHHHHHHC---c-------------CchHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence            111           1122344555555555432   1             122222333222222100 00111235667


Q ss_pred             HhhcCChHHHHHHHHHHHHcCCCCch---hHHHHHHHHHhcCChHHHHH
Q 044352          463 CNIHGRRDLAVTMGEEFFEMGLRKPD---GFVMLSNICAADGEWHEAEN  508 (544)
Q Consensus       463 ~~~~g~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~~  508 (544)
                      |.+.|.+..|..-++.+++.-|+.+.   ++..++.+|.+.|..+.|..
T Consensus       151 Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  151 YYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             HHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            88999999999999999999987654   56778889999999885543

>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=97.42  E-value=0.003  Score=52.29  Aligned_cols=58  Identities=14%  Similarity=0.290  Sum_probs=40.0

Q ss_pred             HHHhhc--cCCChhhHHHHHHHHhc-----cCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh
Q 044352          169 RVFHGM--FERDVVSWTSMISGYCN-----VSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYAR  226 (544)
Q Consensus       169 ~~~~~~--~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  226 (544)
                      ..|+..  ..++-.+|..++..|.+     .|..+=....+..|.+-|+.-|..+|+.|++.+=+
T Consensus        35 ~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   35 ELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             HHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            344444  34566666666666654     46677777778888888888888888888877644

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

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.39  E-value=0.012  Score=50.00  Aligned_cols=133  Identities=9%  Similarity=-0.065  Sum_probs=109.1

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--------CCCChhHHHH
Q 044352          387 TLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--------MYVTNSMAGA  458 (544)
Q Consensus       387 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~~~~~~~  458 (544)
                      ....++..+.-.|.+.-....+.++.+. ..+.++.....+++.-.+.|+.+.|..+|++..        .........+
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~-~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKY-YPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHh-CCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            4556677777889999999999999886 667788888999999999999999999998542        2223334444


Q ss_pred             HHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 044352          459 FRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQK  520 (544)
Q Consensus       459 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  520 (544)
                      ....+.-.+++.+|...+.+.+..+|.++.+.+.-+-++.=.|+..+|++.++.+.+....+
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~  319 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRH  319 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence            55567778899999999999999999999999999999999999999999999998765433

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

Probab=97.36  E-value=0.11  Score=47.42  Aligned_cols=107  Identities=12%  Similarity=0.060  Sum_probs=82.6

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhc
Q 044352          387 TLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIH  466 (544)
Q Consensus       387 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~  466 (544)
                      +.+..+.-|...|+...|.++-.+.    .+ |+...|...+.+|+..++|++-.++...   ..+|..|...+.+|...
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~F----kv-~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKsPIGyepFv~~~~~~  250 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEF----KV-PDKRFWWLKIKALAENKDWDELEKFAKS---KKSPIGYEPFVEACLKY  250 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHc----CC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCCCCChHHHHHHHHHC
Confidence            4555566777888887777664443    44 7888899999999999999988887654   34667888888999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHH
Q 044352          467 GRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLR  510 (544)
Q Consensus       467 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  510 (544)
                      |+..+|..+..+         .....-...|.+.|++.+|.+.-
T Consensus       251 ~~~~eA~~yI~k---------~~~~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  251 GNKKEASKYIPK---------IPDEERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             CCHHHHHHHHHh---------CChHHHHHHHHHCCCHHHHHHHH
Confidence            999999998877         11256677888999999997763

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

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.34  E-value=0.0021  Score=57.92  Aligned_cols=51  Identities=16%  Similarity=0.146  Sum_probs=34.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhcccc---cCHHHHHHHHHHhhCCCChHHHHHHHH
Q 044352           87 ASAFTGNFQEAIGYFSLMREFIYR---CNKFTFSIVLKACVGLLDIKKGKQVHA  137 (544)
Q Consensus        87 ~~~~~~~~~~A~~~~~~~~~~~~~---p~~~~~~~ll~~~~~~~~~~~a~~~~~  137 (544)
                      -+++.|+....+.+|+..++.|..   .=...|..+..+|.-.+++++|.+.+.
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~   79 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHT   79 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhh
Confidence            467788888888888888876533   112345666667777778888877653

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.30  E-value=0.062  Score=45.84  Aligned_cols=58  Identities=10%  Similarity=0.104  Sum_probs=29.2

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhCCC--CCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 044352          221 IASYARRGDSNAAFAFFSRMTAEGF--VPDLVTWNAMISGFAQSKRENEALKLFKGMLVS  278 (544)
Q Consensus       221 ~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  278 (544)
                      ...+...|++.+|.+.|+.+.....  +-.....-.++.++.+.|+++.|...+++.++.
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3344455666666666666654410  111223344555666666666666666666544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.28  E-value=0.0039  Score=53.70  Aligned_cols=91  Identities=12%  Similarity=0.085  Sum_probs=39.9

Q ss_pred             cCCchHHHHHHHHHHHHHhCC-CCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-----CCCChhHHHHHHHHHhhcCChH
Q 044352          397 HGGLVEKGLEIFRSMKERYGV-KISKEHYACVVDMLCRSGRMVEAYDLLRQVP-----MYVTNSMAGAFRNGCNIHGRRD  470 (544)
Q Consensus       397 ~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~  470 (544)
                      +.|++..|...|....+.+.- ......+.+|++++...|++++|..+|..+.     .+.-+.++.-++.+....|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            444555555555555553110 1112334444455555555555444444331     1112334444444444444444


Q ss_pred             HHHHHHHHHHHcCCCCc
Q 044352          471 LAVTMGEEFFEMGLRKP  487 (544)
Q Consensus       471 ~A~~~~~~~~~~~p~~~  487 (544)
                      +|...|+++++..|..+
T Consensus       233 ~A~atl~qv~k~YP~t~  249 (262)
T COG1729         233 EACATLQQVIKRYPGTD  249 (262)
T ss_pred             HHHHHHHHHHHHCCCCH
Confidence            44444444444444433

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.26  E-value=0.24  Score=48.99  Aligned_cols=336  Identities=12%  Similarity=0.035  Sum_probs=168.5

Q ss_pred             cCCCCChhHHHH-----HHHHHHhCCCHHHHHHHHhhccCCC---hhhHHHHHHHHhccCCh--hHHHHHHHHHHHcCCC
Q 044352          142 MGFENDVSVGNA-----LIDMYSKCGLLCSARRVFHGMFERD---VVSWTSMISGYCNVSKV--DEAVVLFERMKLEGLE  211 (544)
Q Consensus       142 ~~~~~~~~~~~~-----l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~  211 (544)
                      .|++.+..-|..     ++.-+...+.+..|.++-..+..|.   ...|......+.+..+.  +++.+..++=.... -
T Consensus       426 ~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~-~  504 (829)
T KOG2280|consen  426 IGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK-L  504 (829)
T ss_pred             cCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhccc-C
Confidence            355655554443     4555666777888888777775544   34555555555555322  22222222211111 1


Q ss_pred             CCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCC----CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHH
Q 044352          212 PNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFV----PDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTV  287 (544)
Q Consensus       212 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  287 (544)
                      -...+|..+.+.....|+.+-|..+++.=...+..    .+..-+...+.-....|+.+-...++-++...-   +...+
T Consensus       505 ~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~---~~s~l  581 (829)
T KOG2280|consen  505 TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKL---NRSSL  581 (829)
T ss_pred             CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHH---HHHHH
Confidence            33456677777777788888887776552222100    011223333444445555555555554443221   11111


Q ss_pred             HHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hc-----CCccHHHHHHHHHHH
Q 044352          288 TGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFE--IT-----RIKNVASWNAMIGCY  360 (544)
Q Consensus       288 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~--~~-----~~~~~~~~~~l~~~~  360 (544)
                      ..      ...+...|..+|....+..-.   .   .+-..| +.++...+...|.  ..     ...-..........+
T Consensus       582 ~~------~l~~~p~a~~lY~~~~r~~~~---~---~l~d~y-~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~  648 (829)
T KOG2280|consen  582 FM------TLRNQPLALSLYRQFMRHQDR---A---TLYDFY-NQDDNHQALASFHLQASYAAETIEGRIPALKTAANAF  648 (829)
T ss_pred             HH------HHHhchhhhHHHHHHHHhhch---h---hhhhhh-hcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHH
Confidence            11      112233444444444432100   0   011112 1222222222111  10     001111122222333


Q ss_pred             HhcCC----------hHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 044352          361 GKHGM----------VDSSIELFERMLE-EGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVD  429 (544)
Q Consensus       361 ~~~g~----------~~~A~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  429 (544)
                      .+...          ..+-+.+.+.+.. .|......+.+--+.-+...|+..+|.++-.+.+     -||...|..-+.
T Consensus       649 a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~  723 (829)
T KOG2280|consen  649 AKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLT  723 (829)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHH
Confidence            33222          1111222222222 1222333345555666677788888887765542     467788888888


Q ss_pred             HHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHH
Q 044352          430 MLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENL  509 (544)
Q Consensus       430 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  509 (544)
                      ++...+++++-.++-+...   .+..|.-...+|.+.|+.++|.+++-+.    ++.+    -...+|.+.|++.+|.++
T Consensus       724 aLa~~~kweeLekfAkskk---sPIGy~PFVe~c~~~~n~~EA~KYiprv----~~l~----ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  724 ALADIKKWEELEKFAKSKK---SPIGYLPFVEACLKQGNKDEAKKYIPRV----GGLQ----EKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             HHHhhhhHHHHHHHHhccC---CCCCchhHHHHHHhcccHHHHhhhhhcc----CChH----HHHHHHHHhccHHHHHHH
Confidence            8888888888877777654   3566666777888899988888876554    1111    567788888888888775


Q ss_pred             H
Q 044352          510 R  510 (544)
Q Consensus       510 ~  510 (544)
                      -
T Consensus       793 A  793 (829)
T KOG2280|consen  793 A  793 (829)
T ss_pred             H
Confidence            3

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

Probab=97.23  E-value=0.24  Score=48.47  Aligned_cols=30  Identities=13%  Similarity=-0.065  Sum_probs=17.7

Q ss_pred             CCChhHHHHHHHHHHhCCCHHHHHHHHhhc
Q 044352          145 ENDVSVGNALIDMYSKCGLLCSARRVFHGM  174 (544)
Q Consensus       145 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  174 (544)
                      .|.+..|..+.......-.++.|+..|-+.
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc  718 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRC  718 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhh
Confidence            456666666666655555556665555544

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=97.22  E-value=0.18  Score=46.99  Aligned_cols=139  Identities=9%  Similarity=0.004  Sum_probs=94.8

Q ss_pred             CCCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHH
Q 044352            7 PINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLN   82 (544)
Q Consensus         7 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~   82 (544)
                      ++..|....-..-+.-....||+-.|-+-...++.. +.++. .......++...|+++.+...+....   .....+..
T Consensus       283 q~~~~~~~~~~~si~k~~~~gd~~aas~~~~~~lr~~~~~p~-~i~l~~~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~  361 (831)
T PRK15180        283 QEKQDQIREITLSITKQLADGDIIAASQQLFAALRNQQQDPV-LIQLRSVIFSHLGYYEQAYQDISDVEKIIGTTDSTLR  361 (831)
T ss_pred             CcCCcchhHHHHHHHHHhhccCHHHHHHHHHHHHHhCCCCch-hhHHHHHHHHHhhhHHHHHHHhhchhhhhcCCchHHH
Confidence            333443344444455556788888888777777777 55555 55556667778899999998887665   45566778


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCC
Q 044352           83 WMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFEND  147 (544)
Q Consensus        83 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  147 (544)
                      .+++..-..|+++.|..+-+-|....+. +...........-..|-++++...|.++...+.+.+
T Consensus       362 ~~~r~~~~l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~  425 (831)
T PRK15180        362 CRLRSLHGLARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQ  425 (831)
T ss_pred             HHHHhhhchhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccCChhc
Confidence            8888888889999999998888875554 333333333334456778888888888877653333

>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=97.21  E-value=0.0059  Score=50.57  Aligned_cols=89  Identities=20%  Similarity=0.362  Sum_probs=64.1

Q ss_pred             CCCHhhHHHHHHHHHh-----cCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcC----------------CCHHHHH
Q 044352          211 EPNQFTYNAIIASYAR-----RGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQS----------------KRENEAL  269 (544)
Q Consensus       211 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------~~~~~a~  269 (544)
                      ..+..+|..++..|.+     .|.++=....+..|.+-|+..|..+|+.|++.+=+.                .+-+-|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            5677778778877764     467777778888999999999999999999887542                1234566


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHhhccCc
Q 044352          270 KLFKGMLVSGIKPNNVTVTGVLQAGGLTGS  299 (544)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  299 (544)
                      +++++|...|+-||..++..++..+.+.+.
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            666666666666666666666666655543

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

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.20  E-value=0.1  Score=50.40  Aligned_cols=84  Identities=12%  Similarity=0.083  Sum_probs=43.1

Q ss_pred             HHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHH----------
Q 044352          286 TVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNA----------  355 (544)
Q Consensus       286 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~----------  355 (544)
                      +...+..-+.+...+..|.++|..+-+.         ..++......++|++|..+-++.++--...|..          
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~Dr  819 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDR  819 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhh
Confidence            3334444444455555555555554322         234555666666666666666655422222222          


Q ss_pred             ---HHHHHHhcCChHHHHHHHHHHHH
Q 044352          356 ---MIGCYGKHGMVDSSIELFERMLE  378 (544)
Q Consensus       356 ---l~~~~~~~g~~~~A~~~~~~~~~  378 (544)
                         .-.+|.+.|+..+|..+++++..
T Consensus       820 FeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  820 FEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHhhh
Confidence               22345556666666666666544

>PRK11906 transcriptional regulator; Provisional

Probab=97.19  E-value=0.0079  Score=56.09  Aligned_cols=145  Identities=10%  Similarity=0.026  Sum_probs=86.3

Q ss_pred             ChHHHHHHHHHHHHc-CCCCC-HHHHHHHHHHHhc---------CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 044352          365 MVDSSIELFERMLEE-GMRAN-EVTLISVLSACSH---------GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR  433 (544)
Q Consensus       365 ~~~~A~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  433 (544)
                      ..+.|+.+|.+.... ...|+ ...|..+..++..         .....+|.++.++..+  --+.|+.....++.++.-
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAve--ld~~Da~a~~~~g~~~~~  350 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSD--ITTVDGKILAIMGLITGL  350 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHh
Confidence            345677778887721 13444 3455555554432         1234456666666655  335566666666776777


Q ss_pred             cCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHH-HHhcCChHHHHHHH
Q 044352          434 SGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI-CAADGEWHEAENLR  510 (544)
Q Consensus       434 ~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~-~~~~g~~~~A~~~~  510 (544)
                      .|+++.|...|+++.  .+....+|...+....-.|+.++|.+.++++++++|.-..+-..-.++ .+=....++|+.+|
T Consensus       351 ~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~~~~~~~~~  430 (458)
T PRK11906        351 SGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNPLKNNIKLY  430 (458)
T ss_pred             hcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCchhhhHHHH
Confidence            777888888887764  333455666666667777888888888888888887654443333333 22334566666665


Q ss_pred             H
Q 044352          511 K  511 (544)
Q Consensus       511 ~  511 (544)
                      -
T Consensus       431 ~  431 (458)
T PRK11906        431 Y  431 (458)
T ss_pred             h
Confidence            3

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.14  E-value=0.0075  Score=51.96  Aligned_cols=87  Identities=16%  Similarity=0.067  Sum_probs=56.9

Q ss_pred             HHhcCCHHHHHHHHHhCC-----CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC---CchhHHHHHHHHHhcCC
Q 044352          431 LCRSGRMVEAYDLLRQVP-----MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR---KPDGFVMLSNICAADGE  502 (544)
Q Consensus       431 ~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~  502 (544)
                      +.+.|++.+|...|....     ..-.+.++..|+.++...|+++.|...|..+.+-.|+   -|+.+..|+.+..+.|+
T Consensus       151 ~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~  230 (262)
T COG1729         151 LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGN  230 (262)
T ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcC
Confidence            445666777777666542     2223445666777777777777777777777775543   34567777777777777


Q ss_pred             hHHHHHHHHHHHhcC
Q 044352          503 WHEAENLRKIMKEKN  517 (544)
Q Consensus       503 ~~~A~~~~~~~~~~~  517 (544)
                      .++|...|+++.+.-
T Consensus       231 ~d~A~atl~qv~k~Y  245 (262)
T COG1729         231 TDEACATLQQVIKRY  245 (262)
T ss_pred             HHHHHHHHHHHHHHC
Confidence            777777777776653

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=97.13  E-value=0.046  Score=47.72  Aligned_cols=166  Identities=13%  Similarity=0.089  Sum_probs=75.2

Q ss_pred             HHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhC
Q 044352          337 DARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYG  416 (544)
Q Consensus       337 ~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  416 (544)
                      ...+++++...+....-..-.......|++.+|...|...... .+-+......++.++...|+.+.|..++..+-..  
T Consensus       121 qlr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~-~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~--  197 (304)
T COG3118         121 QLRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQA-APENSEAKLLLAECLLAAGDVEAAQAILAALPLQ--  197 (304)
T ss_pred             HHHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHh-CcccchHHHHHHHHHHHcCChHHHHHHHHhCccc--
Confidence            3344444444432222222233344555666666666555554 1223444555555555666666666655554321  


Q ss_pred             CCCc-hhHHHHHHHHHHhcCCHHHHHHHHHhCCCCC-ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC--CCCchhHHH
Q 044352          417 VKIS-KEHYACVVDMLCRSGRMVEAYDLLRQVPMYV-TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG--LRKPDGFVM  492 (544)
Q Consensus       417 ~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~  492 (544)
                      ...+ ......-+..+.+.....+..++-.+....| |...-..++..+...|+.+.|.+.+-.+++.+  -.+..+-..
T Consensus       198 ~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~  277 (304)
T COG3118         198 AQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKT  277 (304)
T ss_pred             chhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHH
Confidence            1111 1111122333333333333333333332222 44455555555555566666655555555543  344555555


Q ss_pred             HHHHHHhcCChHH
Q 044352          493 LSNICAADGEWHE  505 (544)
Q Consensus       493 l~~~~~~~g~~~~  505 (544)
                      +..++.-.|..+.
T Consensus       278 lle~f~~~g~~Dp  290 (304)
T COG3118         278 LLELFEAFGPADP  290 (304)
T ss_pred             HHHHHHhcCCCCH
Confidence            5555555554443

>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=97.09  E-value=0.047  Score=41.13  Aligned_cols=140  Identities=16%  Similarity=0.154  Sum_probs=82.2

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 044352          361 GKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEA  440 (544)
Q Consensus       361 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  440 (544)
                      .-.|..++..+++.+....   .+..-++.++--....-+-+-..+.++.+-+.|.+.+ -.....++.+|...|.    
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~-C~NlKrVi~C~~~~n~----   84 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISK-CGNLKRVIECYAKRNK----   84 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG--S-THHHHHHHHHTT-----
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCchh-hcchHHHHHHHHHhcc----
Confidence            3467777777777777663   3445555555544444455555555555533211111 0122334444444443    


Q ss_pred             HHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 044352          441 YDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQ  519 (544)
Q Consensus       441 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  519 (544)
                                 ........+..+...|+-+.-.+++..+.+.+..+|..+..++.+|.+.|+..++-++++++-++|++
T Consensus        85 -----------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 -----------LSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             -------------HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             -----------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence                       33344445567788999999999999998766678999999999999999999999999999998874

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

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

Probab=97.06  E-value=0.26  Score=45.73  Aligned_cols=436  Identities=11%  Similarity=0.027  Sum_probs=222.0

Q ss_pred             HhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCC---chhHHHHHHHHHhcCCHHHHHHHHHHHHhccccc
Q 044352           35 VHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPN---VFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRC  111 (544)
Q Consensus        35 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p  111 (544)
                      +-+++...|.+.. .|..|++-+...|..++-+++++++..|-   +.+|...+.+-...+++.....+|.+.+..... 
T Consensus        31 LRerIkdNPtnI~-S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~-  108 (660)
T COG5107          31 LRERIKDNPTNIL-SYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLN-  108 (660)
T ss_pred             HHHHhhcCchhHH-HHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhcc-
Confidence            3333333377777 88888888888888888888888877443   346777777777777888888888887765433 


Q ss_pred             CHHHHHHHHHHhhCCC------ChHHHHHHHHHHHH-cCCCCC-hhHHHHHHHHH---------HhCCCHHHHHHHHhhc
Q 044352          112 NKFTFSIVLKACVGLL------DIKKGKQVHAVATQ-MGFEND-VSVGNALIDMY---------SKCGLLCSARRVFHGM  174 (544)
Q Consensus       112 ~~~~~~~ll~~~~~~~------~~~~a~~~~~~~~~-~~~~~~-~~~~~~l~~~~---------~~~~~~~~A~~~~~~~  174 (544)
                       ...|..-+....+.+      .-....+.++-... .++.|- ...|+..+..+         -.+.+++.....+.++
T Consensus       109 -ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ra  187 (660)
T COG5107         109 -LDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRA  187 (660)
T ss_pred             -HhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHHH
Confidence             333433333222211      11223344444333 233332 22333333222         1233456667777766


Q ss_pred             cCC----------ChhhHHHHHHHHhc-------cCChhHHHHHHHHHHH--cCCC----CCHhhHHHHHH---------
Q 044352          175 FER----------DVVSWTSMISGYCN-------VSKVDEAVVLFERMKL--EGLE----PNQFTYNAIIA---------  222 (544)
Q Consensus       175 ~~~----------~~~~~~~l~~~~~~-------~~~~~~a~~~~~~~~~--~~~~----~~~~~~~~l~~---------  222 (544)
                      ...          |-..|..=+.....       .--+-.|...++++..  .|..    .+..+++.+-+         
T Consensus       188 l~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlNw  267 (660)
T COG5107         188 LQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWLNW  267 (660)
T ss_pred             HcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhhhH
Confidence            441          11122111111100       1123455566665532  2322    12233332211         


Q ss_pred             --HHHhc-----CC-h-HHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044352          223 --SYARR-----GD-S-NAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQA  293 (544)
Q Consensus       223 --~~~~~-----~~-~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  293 (544)
                        .-...     |+ . +..--++++...- +.-....|.--...+...++-++|+.....    |++..+.....+-..
T Consensus       268 IkwE~en~l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~r----g~~~spsL~~~lse~  342 (660)
T COG5107         268 IKWEMENGLKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVER----GIEMSPSLTMFLSEY  342 (660)
T ss_pred             hhHhhcCCcccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHHh----cccCCCchheeHHHH
Confidence              10000     00 0 0111111111111 122233333333344455666666665544    322222222222333


Q ss_pred             hhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh---cCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHH
Q 044352          294 GGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSK---CGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSI  370 (544)
Q Consensus       294 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  370 (544)
                      +....+.+.....|+...+.-    ..-|. .+..-+.   .|+++.-.+++-.-...=..+|...+..-.+..-.+.|.
T Consensus       343 yel~nd~e~v~~~fdk~~q~L----~r~ys-~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR  417 (660)
T COG5107         343 YELVNDEEAVYGCFDKCTQDL----KRKYS-MGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAAR  417 (660)
T ss_pred             HhhcccHHHHhhhHHHHHHHH----HHHHh-hhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHH
Confidence            344444444444444332210    00000 0000000   122222222221111122345666777777777788899


Q ss_pred             HHHHHHHHcC-CCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-
Q 044352          371 ELFERMLEEG-MRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-  448 (544)
Q Consensus       371 ~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-  448 (544)
                      .+|-+..+.| +.++..++.+++..++ .|+...|..+|+.-...  ++.+.......+..+.+.++-..|..+|+... 
T Consensus       418 ~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl~fLi~inde~naraLFetsv~  494 (660)
T COG5107         418 KLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYLLFLIRINDEENARALFETSVE  494 (660)
T ss_pred             HHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHH
Confidence            9999998887 5567777788777654 47888888888876653  34444444566777888899999999998653 


Q ss_pred             ---CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC
Q 044352          449 ---MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK  486 (544)
Q Consensus       449 ---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  486 (544)
                         ...-...|..++.--..-|+...+..+-+++.+.-|..
T Consensus       495 r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         495 RLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence               22225577777777777888888888888888877753

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=97.05  E-value=0.099  Score=45.74  Aligned_cols=121  Identities=8%  Similarity=0.017  Sum_probs=73.6

Q ss_pred             HHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHH---HHHHHhhcCChH
Q 044352          394 ACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGA---FRNGCNIHGRRD  470 (544)
Q Consensus       394 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---l~~~~~~~g~~~  470 (544)
                      .....|++.+|...|+.....  .+-+......++++|...|+.+.|..++..++..-....+..   -+..+.+.....
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            445667777777777777663  333455666677777777888888888777763322222222   222333333333


Q ss_pred             HHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          471 LAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       471 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +... +++-+..+|+|...-..++..+...|+.++|.+.+=.+++++
T Consensus       221 ~~~~-l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d  266 (304)
T COG3118         221 EIQD-LQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRD  266 (304)
T ss_pred             CHHH-HHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            3222 444456677777777777777777788877777665555543

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.03  E-value=0.00089  Score=46.87  Aligned_cols=60  Identities=13%  Similarity=0.138  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC-----CC---CC-hhHHHHHHHHHhhcCChHHHHHHHHHHHHc
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP-----MY---VT-NSMAGAFRNGCNIHGRRDLAVTMGEEFFEM  482 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~---~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  482 (544)
                      +++.++..|...|++++|+..|+++.     ..   |+ ..++..++.++...|++++|++++++++++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            45555555666666666655555432     11   11 335666777777888888888888877654

...

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=97.00  E-value=0.0085  Score=44.79  Aligned_cols=86  Identities=15%  Similarity=0.091  Sum_probs=39.2

Q ss_pred             HHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC-CCCc---hhHHHHHHHHHhcCChH
Q 044352          431 LCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG-LRKP---DGFVMLSNICAADGEWH  504 (544)
Q Consensus       431 ~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~---~~~~~l~~~~~~~g~~~  504 (544)
                      +...|+.+.|++.|.+..  .+.....|++-+.++.-.|+.++|+.-+++++++. |...   .+|..-+.+|...|+-+
T Consensus        53 laE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~dd  132 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGNDD  132 (175)
T ss_pred             HHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCchH
Confidence            334444455544444432  22334445555555555555555555555555543 2111   12444444555555555


Q ss_pred             HHHHHHHHHHhc
Q 044352          505 EAENLRKIMKEK  516 (544)
Q Consensus       505 ~A~~~~~~~~~~  516 (544)
                      .|+.-|+...+.
T Consensus       133 ~AR~DFe~AA~L  144 (175)
T KOG4555|consen  133 AARADFEAAAQL  144 (175)
T ss_pred             HHHHhHHHHHHh
Confidence            555555444433

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.96  E-value=0.071  Score=51.92  Aligned_cols=159  Identities=12%  Similarity=0.010  Sum_probs=100.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHH------HHHHHHHHHh----cCCchHHHHHHHHHHHHHhCCCCchhHHH
Q 044352          356 MIGCYGKHGMVDSSIELFERMLEEGMRANEV------TLISVLSACS----HGGLVEKGLEIFRSMKERYGVKISKEHYA  425 (544)
Q Consensus       356 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~------~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  425 (544)
                      ++....-.|+-+.+++.+.+..+.+---.+.      .|..++..++    .....+.|.+++..+.++  .|.+.-...
T Consensus       194 ll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~  271 (468)
T PF10300_consen  194 LLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLF  271 (468)
T ss_pred             HHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHH
Confidence            3444444566666666666554432111111      2222222222    245678888888888774  333333334


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhCCC------CCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHH-HHHHH
Q 044352          426 CVVDMLCRSGRMVEAYDLLRQVPM------YVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVML-SNICA  498 (544)
Q Consensus       426 ~l~~~~~~~g~~~~A~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l-~~~~~  498 (544)
                      .-++.+...|+.++|++.|+++..      +.....+.-++..+....++++|...+.++.+.+.-+...|..+ +.++.
T Consensus       272 ~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a~c~~  351 (468)
T PF10300_consen  272 FEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAAACLL  351 (468)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            446677788999999999987541      12234556677778888999999999999999887666665555 45566


Q ss_pred             hcCCh-------HHHHHHHHHHHhc
Q 044352          499 ADGEW-------HEAENLRKIMKEK  516 (544)
Q Consensus       499 ~~g~~-------~~A~~~~~~~~~~  516 (544)
                      ..|+.       ++|.++++++...
T Consensus       352 ~l~~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  352 MLGREEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             hhccchhhhhhHHHHHHHHHHHHHH
Confidence            77888       8888888888653

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

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

Probab=96.93  E-value=0.005  Score=49.45  Aligned_cols=68  Identities=15%  Similarity=0.186  Sum_probs=53.9

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH-----hcCCCCCC
Q 044352          455 MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMK-----EKNVQKQP  522 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~  522 (544)
                      +...++..+...|++++|+..+++++..+|-+...+..++.+|...|+..+|++.|+++.     +.|+.|.+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~  136 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSP  136 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----H
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCH
Confidence            445566678889999999999999999999999999999999999999999999999885     34666655

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

>PRK15331 chaperone protein SicA; Provisional

Probab=96.93  E-value=0.027  Score=44.74  Aligned_cols=86  Identities=10%  Similarity=0.039  Sum_probs=42.1

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH
Q 044352          360 YGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVE  439 (544)
Q Consensus       360 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  439 (544)
                      +...|++++|..+|+-+...+ +-+..-+..|..++-..+++++|+..|...... . ..|+..+...+.+|...|+.+.
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l-~-~~dp~p~f~agqC~l~l~~~~~  123 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTL-L-KNDYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-c-cCCCCccchHHHHHHHhCCHHH
Confidence            344555555555555555432 223334444444455555555555555554332 1 2333334445555555555555


Q ss_pred             HHHHHHhCC
Q 044352          440 AYDLLRQVP  448 (544)
Q Consensus       440 A~~~~~~~~  448 (544)
                      |...|+.+.
T Consensus       124 A~~~f~~a~  132 (165)
T PRK15331        124 ARQCFELVN  132 (165)
T ss_pred             HHHHHHHHH
Confidence            555555443

>PRK11619 lytic murein transglycosylase; Provisional

Probab=96.92  E-value=0.58  Score=47.56  Aligned_cols=115  Identities=10%  Similarity=0.005  Sum_probs=59.8

Q ss_pred             cCChHHHHHHHHHHHHcC-CCCCHH--HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH
Q 044352          363 HGMVDSSIELFERMLEEG-MRANEV--TLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVE  439 (544)
Q Consensus       363 ~g~~~~A~~~~~~~~~~~-~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  439 (544)
                      ..+.+.|...+....... +.+...  +...+.......+..+++...++.....   ..+......-+....+.++++.
T Consensus       254 r~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~---~~~~~~~e~r~r~Al~~~dw~~  330 (644)
T PRK11619        254 RQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMR---SQSTSLLERRVRMALGTGDRRG  330 (644)
T ss_pred             HhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccc---cCCcHHHHHHHHHHHHccCHHH
Confidence            445566777777654432 222211  2233332223332245555555544321   2244444555555557777777


Q ss_pred             HHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHH
Q 044352          440 AYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFF  480 (544)
Q Consensus       440 A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  480 (544)
                      +...+..|+  ......-...++.++...|+.++|..+|+++.
T Consensus       331 ~~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        331 LNTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            777777765  12223344555666666777777777777763

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.92  E-value=0.35  Score=45.00  Aligned_cols=416  Identities=13%  Similarity=0.072  Sum_probs=203.3

Q ss_pred             HHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCCC---C---------------Cch
Q 044352           19 LLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPN---P---------------NVF   79 (544)
Q Consensus        19 l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~---------------~~~   79 (544)
                      +++++ -.++++.-........+. +.... ...-.+-.+-+.++++.|.+.|..-..   .               +..
T Consensus        52 ilnAf-fl~nld~Me~~l~~l~~~~~~s~~-l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~  129 (549)
T PF07079_consen   52 ILNAF-FLNNLDLMEKQLMELRQQFGKSAY-LPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFF  129 (549)
T ss_pred             HHHHH-HHhhHHHHHHHHHHHHHhcCCchH-HHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHH
Confidence            34444 445666666666666555 43433 333344444578999999998865431   1               111


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcccc----cCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcC-CCCChhHHHHH
Q 044352           80 MLNWMVMASAFTGNFQEAIGYFSLMREFIYR----CNKFTFSIVLKACVGLLDIKKGKQVHAVATQMG-FENDVSVGNAL  154 (544)
Q Consensus        80 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~----p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l  154 (544)
                      .-+..++.+...|++.++..+++++..+=.+    .+..+|+.++-.+.+        ..|-++.+.. ...-+..|. +
T Consensus       130 l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsr--------SYfLEl~e~~s~dl~pdyYe-m  200 (549)
T PF07079_consen  130 LDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSR--------SYFLELKESMSSDLYPDYYE-M  200 (549)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhH--------HHHHHHHHhcccccChHHHH-H
Confidence            1234567788999999999999998765333    688888886655432        2333332221 111222333 3


Q ss_pred             HHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhcc--CChhHHHHHHHHHHHcCCCCCHhh-HHHHHHHHHhcCChH
Q 044352          155 IDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNV--SKVDEAVVLFERMKLEGLEPNQFT-YNAIIASYARRGDSN  231 (544)
Q Consensus       155 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~  231 (544)
                      +-.|.+.=+.-++. -+++. -|.......++....-.  ....--.+++..-...-+.|+-.. ...+...+..  +.+
T Consensus       201 ilfY~kki~~~d~~-~Y~k~-~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e  276 (549)
T PF07079_consen  201 ILFYLKKIHAFDQR-PYEKF-IPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPE  276 (549)
T ss_pred             HHHHHHHHHHHhhc-hHHhh-CcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChH
Confidence            33333211111110 00111 12222222333222211  111112222222223334444332 2233333333  455


Q ss_pred             HHHHHHHHhhhCCCC----CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH-------HHhh-ccCc
Q 044352          232 AAFAFFSRMTAEGFV----PDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVL-------QAGG-LTGS  299 (544)
Q Consensus       232 ~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-------~~~~-~~~~  299 (544)
                      ++..+.+.+....+.    .=..+|..++....+.++...|.+.+.-+.--  .|+...-..++       ...+ ...+
T Consensus       277 ~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~  354 (549)
T PF07079_consen  277 QVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDES  354 (549)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHH
Confidence            555555444432111    12356777788888888888888877766532  34333221111       1111 2222


Q ss_pred             hHHHHH---HHHHHHHcCCCCCHHHHHHHH---HHHHhcCC-HHHHHHHHHhcCC---ccHHHHHHHH----HHHHh---
Q 044352          300 IQIGRE---IHALVCRMGLHIDVFTGSALI---DMYSKCGS-LKDARTLFEITRI---KNVASWNAMI----GCYGK---  362 (544)
Q Consensus       300 ~~~a~~---~~~~~~~~~~~~~~~~~~~l~---~~~~~~~~-~~~A~~~~~~~~~---~~~~~~~~l~----~~~~~---  362 (544)
                      ......   ++......++. ......-++   .-+-+.|. -++|.++++.+.+   .|...-|.+.    ..|.+   
T Consensus       355 ~Tklr~yL~lwe~~qs~DiD-rqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs  433 (549)
T PF07079_consen  355 YTKLRDYLNLWEEIQSYDID-RQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALS  433 (549)
T ss_pred             HHHHHHHHHHHHHHHhhccc-HHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHh
Confidence            222222   22332222211 111122222   22223344 6777777776553   2333222221    11211   


Q ss_pred             cCChHHHHHHHHHHHHcCCCC----CHHHHHHHHHH--HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC
Q 044352          363 HGMVDSSIELFERMLEEGMRA----NEVTLISVLSA--CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGR  436 (544)
Q Consensus       363 ~g~~~~A~~~~~~~~~~~~~~----~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  436 (544)
                      .....+-+.+-+-..+.|++|    +...-+.+..+  +...|++.++.-.-.-+.   .+.|++.+|.-++-++....+
T Consensus       434 ~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~---~iaPS~~~~RLlGl~l~e~k~  510 (549)
T PF07079_consen  434 MHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLT---KIAPSPQAYRLLGLCLMENKR  510 (549)
T ss_pred             hhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH---HhCCcHHHHHHHHHHHHHHhh
Confidence            123334444444455567666    23345555544  456788888876655554   457888888888888888888


Q ss_pred             HHHHHHHHHhCCCCCChhHHH
Q 044352          437 MVEAYDLLRQVPMYVTNSMAG  457 (544)
Q Consensus       437 ~~~A~~~~~~~~~~~~~~~~~  457 (544)
                      +++|..++..+|  |+..+++
T Consensus       511 Y~eA~~~l~~LP--~n~~~~d  529 (549)
T PF07079_consen  511 YQEAWEYLQKLP--PNERMRD  529 (549)
T ss_pred             HHHHHHHHHhCC--CchhhHH
Confidence            888888888885  3444443

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.91  E-value=0.57  Score=47.16  Aligned_cols=216  Identities=12%  Similarity=0.026  Sum_probs=137.8

Q ss_pred             CCCcchHHHHHHHhhccchhhhhhHHhHHHhhc--ccc----------------hhhHHHHHHHHhhcCCChHHHHHHhc
Q 044352           10 NLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN--DLN----------------IFSLKSKLVGVYAGCGDVNSARLVFD   71 (544)
Q Consensus        10 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~----------------~~~~~~~l~~~~~~~g~~~~A~~~~~   71 (544)
                      ..+......++.++...+.+-.-.-+++.+...  ...                .. ....-+..+.+..-++-|+.+-+
T Consensus       280 s~s~ss~~~i~~~~d~~n~~v~ys~vl~~l~d~l~~w~~~~~vltsdg~~~~L~ek-~le~kL~iL~kK~ly~~Ai~LAk  358 (933)
T KOG2114|consen  280 SLSNSSSNRIFKAYDLRNRYVLYSSVLEDLSDNLIEWSFDCLVLTSDGVVHELIEK-DLETKLDILFKKNLYKVAINLAK  358 (933)
T ss_pred             ccCccchhheeehhhhcCcccchHHhHHHHHHHHHhcCCcEEEEecCCceeeeeec-cHHHHHHHHHHhhhHHHHHHHHH
Confidence            345556677777777777665544444444332  111                11 23345667778888888888877


Q ss_pred             cCCCC-C--chhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCCh
Q 044352           72 KIPNP-N--VFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDV  148 (544)
Q Consensus        72 ~~~~~-~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  148 (544)
                      .-..+ +  ..........+.+.|++++|.+.|-+.+.. +.|.     .++.-|........-..+++.+.+.|+ .+.
T Consensus       359 ~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~gl-a~~  431 (933)
T KOG2114|consen  359 SQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEALHKKGL-ANS  431 (933)
T ss_pred             hcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHHHHHccc-ccc
Confidence            65421 1  123334455667899999999988887643 3332     345555666667777778888888885 455


Q ss_pred             hHHHHHHHHHHhCCCHHHHHHHHhhccCCCh-hhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc
Q 044352          149 SVGNALIDMYSKCGLLCSARRVFHGMFERDV-VSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARR  227 (544)
Q Consensus       149 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  227 (544)
                      .....|+.+|.+.++.++-.++.+...+... .-....+..+.+.+-.++|.-+-.+...     .......   .+-..
T Consensus       432 dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~i---lle~~  503 (933)
T KOG2114|consen  432 DHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDI---LLEDL  503 (933)
T ss_pred             hhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHH---HHHHh
Confidence            5567899999999999999888887763211 1245566677777777777666554431     2333333   33456


Q ss_pred             CChHHHHHHHHHhh
Q 044352          228 GDSNAAFAFFSRMT  241 (544)
Q Consensus       228 ~~~~~a~~~~~~~~  241 (544)
                      +++++|++.+..+.
T Consensus       504 ~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  504 HNYEEALRYISSLP  517 (933)
T ss_pred             cCHHHHHHHHhcCC
Confidence            88999999988875

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.90  E-value=0.53  Score=46.71  Aligned_cols=105  Identities=15%  Similarity=0.159  Sum_probs=56.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHH
Q 044352          324 ALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEK  403 (544)
Q Consensus       324 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  403 (544)
                      -.+.-+...|+..+|.++-.+..-|+-..|-.-+.+++..+++++-+++-+...      ++.-|..++.+|.+.|+.++
T Consensus       689 dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~E  762 (829)
T KOG2280|consen  689 DTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDE  762 (829)
T ss_pred             HHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHH
Confidence            334444555666666666666666666666555666666666655444433221      13445555666666666666


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHH
Q 044352          404 GLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLL  444 (544)
Q Consensus       404 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  444 (544)
                      |..++-+...   .+       ..+.+|.+.|++.+|.++-
T Consensus       763 A~KYiprv~~---l~-------ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  763 AKKYIPRVGG---LQ-------EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             HhhhhhccCC---hH-------HHHHHHHHhccHHHHHHHH
Confidence            6665544321   11       3445556666666555543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.89  E-value=0.13  Score=47.42  Aligned_cols=94  Identities=13%  Similarity=0.176  Sum_probs=51.1

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHcC---CCCCHhhHHHHHHHHHh---cCChHHHHHHHHHhhhCCCCCCHhHHHHHHH
Q 044352          184 SMISGYCNVSKVDEAVVLFERMKLEG---LEPNQFTYNAIIASYAR---RGDSNAAFAFFSRMTAEGFVPDLVTWNAMIS  257 (544)
Q Consensus       184 ~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  257 (544)
                      .++-+|....+++...++++.+...-   +.-....-....-++.+   .|+.++|++++..+....-.+++.+|..+.+
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            44445666677777777777765431   01111111223334444   6677777777777444444666677776665


Q ss_pred             HHHc---------CCCHHHHHHHHHHHHH
Q 044352          258 GFAQ---------SKRENEALKLFKGMLV  277 (544)
Q Consensus       258 ~~~~---------~~~~~~a~~~~~~~~~  277 (544)
                      .|-.         ....++|+..|.+.-+
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe  254 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFE  254 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHc
Confidence            5432         2235667777776553

>PRK11906 transcriptional regulator; Provisional

Probab=96.86  E-value=0.076  Score=49.81  Aligned_cols=140  Identities=9%  Similarity=0.021  Sum_probs=78.1

Q ss_pred             HHHHHHHHHhcC---Ccc---HHHHHHHHHHHHhc---------CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 044352          335 LKDARTLFEITR---IKN---VASWNAMIGCYGKH---------GMVDSSIELFERMLEEGMRANEVTLISVLSACSHGG  399 (544)
Q Consensus       335 ~~~A~~~~~~~~---~~~---~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  399 (544)
                      .+.|..+|.+..   .-+   ...|..+..++...         ....+|.++.++..+.+ +.|+.....+..+....+
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhc
Confidence            456666777666   333   33444444433321         22345666666666653 456666666666666667


Q ss_pred             chHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhC-CCCCChh---HHHHHHHHHhhcCChHHHHHH
Q 044352          400 LVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQV-PMYVTNS---MAGAFRNGCNIHGRRDLAVTM  475 (544)
Q Consensus       400 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~---~~~~l~~~~~~~g~~~~A~~~  475 (544)
                      +++.|...|++....  .|.....|........-.|+.++|.+.+++. ...|...   .....+..|+.. ..+.|+++
T Consensus       353 ~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~~~  429 (458)
T PRK11906        353 QAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPN-PLKNNIKL  429 (458)
T ss_pred             chhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCC-chhhhHHH
Confidence            777777777777642  2333455656666666777777777777773 3333322   223333344433 45566665


Q ss_pred             HHH
Q 044352          476 GEE  478 (544)
Q Consensus       476 ~~~  478 (544)
                      |-+
T Consensus       430 ~~~  432 (458)
T PRK11906        430 YYK  432 (458)
T ss_pred             Hhh
Confidence            544

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.79  E-value=0.0061  Score=56.71  Aligned_cols=58  Identities=17%  Similarity=0.047  Sum_probs=27.9

Q ss_pred             HHHHHHHHhhcCCChHHHHHHhccCC--CCC-c---hhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044352           49 LKSKLVGVYAGCGDVNSARLVFDKIP--NPN-V---FMLNWMVMASAFTGNFQEAIGYFSLMRE  106 (544)
Q Consensus        49 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~-~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~  106 (544)
                      .++.++.+|...|++++|+..|++..  .|+ .   .+|+.+..+|...|+.++|+..+++.++
T Consensus        77 a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         77 DAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555555554433  122 1   1245555555555555555555555544

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.79  E-value=0.05  Score=48.12  Aligned_cols=158  Identities=9%  Similarity=0.003  Sum_probs=67.8

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHH----HHHHHHhcCCHH
Q 044352          363 HGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYAC----VVDMLCRSGRMV  438 (544)
Q Consensus       363 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~g~~~  438 (544)
                      +|+..+|...++++++. .|.|...+...=.+|...|+.+.-...++++...  ..++.+.|..    +.-++..+|-++
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            44555555555555543 3334444444444555555555555555555432  2333322222    222334555555


Q ss_pred             HHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC----CchhHHHHHHHHHhcCChHHHHHHHHH
Q 044352          439 EAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR----KPDGFVMLSNICAADGEWHEAENLRKI  512 (544)
Q Consensus       439 ~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~~~~~~  512 (544)
                      +|.+.-++..  .+.|.-+.-+....+.-.|++.++++...+--..-..    -..-|...+..+...+.++.|+++|+.
T Consensus       193 dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  193 DAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             hHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            5555555543  2222222233333444455555555544432211100    011233334444455555555555555


Q ss_pred             HHhcCCCCCCC
Q 044352          513 MKEKNVQKQPG  523 (544)
Q Consensus       513 ~~~~~~~~~~~  523 (544)
                      -+-+...++.+
T Consensus       273 ei~k~l~k~Da  283 (491)
T KOG2610|consen  273 EIWKRLEKDDA  283 (491)
T ss_pred             HHHHHhhccch
Confidence            44444444443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.78  E-value=0.0038  Score=35.11  Aligned_cols=32  Identities=13%  Similarity=0.011  Sum_probs=22.8

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC
Q 044352          455 MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK  486 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  486 (544)
                      .+..++..+...|++++|++.++++++++|+|
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            45666777777777777777777777777764

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.76  E-value=0.59  Score=45.25  Aligned_cols=406  Identities=10%  Similarity=0.045  Sum_probs=205.0

Q ss_pred             chHHHHHHHhhccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHH-
Q 044352           14 NYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASA-   89 (544)
Q Consensus        14 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~-   89 (544)
                      ..+..++.---...+.+.+..++..++..-|-....|...+..-.+.|..+.+..+|++..   +.+...|......+. 
T Consensus        46 ~~wt~li~~~~~~~~~~~~r~~y~~fL~kyPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~aip~SvdlW~~Y~~f~~n  125 (577)
T KOG1258|consen   46 DAWTTLIQENDSIEDVDALREVYDIFLSKYPLCYGYWKKFADYEYKLGNAENSVKVFERGVQAIPLSVDLWLSYLAFLKN  125 (577)
T ss_pred             cchHHHHhccCchhHHHHHHHHHHHHHhhCccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc
Confidence            3444444444444455777788888887744444377777777778888888888888765   556666766665443 


Q ss_pred             hcCCHHHHHHHHHHHHhc-ccc-cCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh-----CC
Q 044352           90 FTGNFQEAIGYFSLMREF-IYR-CNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSK-----CG  162 (544)
Q Consensus        90 ~~~~~~~A~~~~~~~~~~-~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~  162 (544)
                      ..|+.+...+.|+..... |.. -....|...|..-..++++.....+++++++.....-...|.......-.     ..
T Consensus       126 ~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f~~~l~~~~~~~l~  205 (577)
T KOG1258|consen  126 NNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRFKQLLNQNEEKILL  205 (577)
T ss_pred             cCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhcCChhhhc
Confidence            467777777788877654 211 13334666666667778888888888888765321111111111111111     11


Q ss_pred             CHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhh--HHHHHH-------HHHhcCChHHH
Q 044352          163 LLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFT--YNAIIA-------SYARRGDSNAA  233 (544)
Q Consensus       163 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~-------~~~~~~~~~~a  233 (544)
                      ..+++.++-......         ......+...+-.+.  .+...+.+.+..+  .+.+..       .+-........
T Consensus       206 ~~d~~~~l~~~~~~~---------~~~~~~~~~~e~~~~--~v~~~~~~s~~l~~~~~~l~~~~~~~~~~~~~s~~~~~k  274 (577)
T KOG1258|consen  206 SIDELIQLRSDVAER---------SKITHSQEPLEELEI--GVKDSTDPSKSLTEEKTILKRIVSIHEKVYQKSEEEEEK  274 (577)
T ss_pred             CHHHHHHHhhhHHhh---------hhcccccChhHHHHH--HHhhccCccchhhHHHHHHHHHHHHHHHHHHhhHhHHHH
Confidence            122222211111100         000001111111111  1111110111100  011111       11111222223


Q ss_pred             HHHHHHhhhCC---C----CCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHH
Q 044352          234 FAFFSRMTAEG---F----VPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREI  306 (544)
Q Consensus       234 ~~~~~~~~~~~---~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  306 (544)
                      ...|+.-.+.-   +    .++..+|..-+.--...|+++.+.-+|+...-. +..-...|-..+.-....|+.+.+..+
T Consensus       275 r~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~  353 (577)
T KOG1258|consen  275 RWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNV  353 (577)
T ss_pred             HHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHH
Confidence            33333333221   1    234567888888888889999888888876532 111223333333333344888888887


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--ccHH-HHHHHHHHHHhcCChHHHHH---HHHHHHHcC
Q 044352          307 HALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI--KNVA-SWNAMIGCYGKHGMVDSSIE---LFERMLEEG  380 (544)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~-~~~~l~~~~~~~g~~~~A~~---~~~~~~~~~  380 (544)
                      +....+..++..+.+...-....-..|++..|..+++.+..  |+.. .-..-+....+.|+.+.+..   ++...... 
T Consensus       354 ~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e~pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~-  432 (577)
T KOG1258|consen  354 LARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESEYPGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEG-  432 (577)
T ss_pred             HHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhhCCchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccc-
Confidence            77777665544444433333334456788888888887764  3322 22222333445666666662   22222221 


Q ss_pred             CCCCHHHHHHHHHH-----HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC
Q 044352          381 MRANEVTLISVLSA-----CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSG  435 (544)
Q Consensus       381 ~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  435 (544)
                       .-+..+...+..-     +.-.++.+.|..++.++.+  ..+++...|..++......+
T Consensus       433 -~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~--~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  433 -KENNGILEKLYVKFARLRYKIREDADLARIILLEAND--ILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             -ccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhh--cCCccHHHHHHHHHHHHhCC
Confidence             1122222222211     2235677888888888876  56677777777766655443

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

Probab=96.76  E-value=0.027  Score=45.14  Aligned_cols=68  Identities=22%  Similarity=0.338  Sum_probs=37.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHH-----cCCCCCHHH
Q 044352          218 NAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLV-----SGIKPNNVT  286 (544)
Q Consensus       218 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  286 (544)
                      ..++..+...|++++|..+.+.+.... +-+...|..+|.+|...|+...|.+.|+++..     .|+.|+..+
T Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   66 ERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            344555556667777777766666553 44566666677777777777777776666542     355555443

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

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

Probab=96.67  E-value=0.55  Score=43.70  Aligned_cols=127  Identities=12%  Similarity=0.088  Sum_probs=92.8

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHhC-CCCchhHHHHHHHHHHhcCCHHHHHHHHHhC-CCCCChh-HHHHHHHHH
Q 044352          387 TLISVLSACSHGGLVEKGLEIFRSMKERYG-VKISKEHYACVVDMLCRSGRMVEAYDLLRQV-PMYVTNS-MAGAFRNGC  463 (544)
Q Consensus       387 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~-~~~~l~~~~  463 (544)
                      +|...+....+..-++.|..+|-++.+. + +.++..++.+++.-+ ..|+...|..+|+-- ..-||.. .....+.-+
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~-~~~~h~vyi~~A~~E~~-~~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fL  476 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKE-GIVGHHVYIYCAFIEYY-ATGDRATAYNIFELGLLKFPDSTLYKEKYLLFL  476 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhcc-CCCCcceeeeHHHHHHH-hcCCcchHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            4555666666777889999999999876 5 567777788877755 468899999999863 3334444 445566677


Q ss_pred             hhcCChHHHHHHHHHHHHcCC--CCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          464 NIHGRRDLAVTMGEEFFEMGL--RKPDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       464 ~~~g~~~~A~~~~~~~~~~~p--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      ...++-..|+.+|+..++.-.  .-...|..++.--..-|+...+..+=+++.+
T Consensus       477 i~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         477 IRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            788999999999997776432  2356788888888888998888776666543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.67  E-value=0.33  Score=41.17  Aligned_cols=198  Identities=11%  Similarity=0.007  Sum_probs=101.2

Q ss_pred             HHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCcc--HHHHHHHHHHHHhcCC
Q 044352          288 TGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKN--VASWNAMIGCYGKHGM  365 (544)
Q Consensus       288 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~l~~~~~~~g~  365 (544)
                      .....+|....+++.+...+.+..+.. ..+...|.       ....++.|.-+.+++.+-+  +..|+.-...|..+|.
T Consensus        35 ekAAvafRnAk~feKakdcLlkA~~~y-Ennrslfh-------AAKayEqaamLake~~klsEvvdl~eKAs~lY~E~Gs  106 (308)
T KOG1585|consen   35 EKAAVAFRNAKKFEKAKDCLLKASKGY-ENNRSLFH-------AAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECGS  106 (308)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHHH-HhcccHHH-------HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCC
Confidence            333445555666666666555444211 11111111       1122333444444443321  2234455566677777


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCC----CCchhHHHHHHHHHHhcCCHHHHH
Q 044352          366 VDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGV----KISKEHYACVVDMLCRSGRMVEAY  441 (544)
Q Consensus       366 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~  441 (544)
                      ++.|-..+++.-+.                ....+++.|+++|++...-...    ..-.+.+....+.|.+..++++|-
T Consensus       107 pdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa  170 (308)
T KOG1585|consen  107 PDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAA  170 (308)
T ss_pred             cchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHH
Confidence            76666665554331                2233445555555554332111    111234455556677777777776


Q ss_pred             HHHHhCC-------CCCCh-hHHHHHHHHHhhcCChHHHHHHHHHHHHcC----CCCchhHHHHHHHHHhcCChHHHHHH
Q 044352          442 DLLRQVP-------MYVTN-SMAGAFRNGCNIHGRRDLAVTMGEEFFEMG----LRKPDGFVMLSNICAADGEWHEAENL  509 (544)
Q Consensus       442 ~~~~~~~-------~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----p~~~~~~~~l~~~~~~~g~~~~A~~~  509 (544)
                      ..+.+-.       ..+++ ..+...+-.+....++..|++.++.-.++.    |++..+...|+.+| ..|+.+++..+
T Consensus       171 ~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kv  249 (308)
T KOG1585|consen  171 TAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKV  249 (308)
T ss_pred             HHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHH
Confidence            6554431       12222 234444556666678888888888866543    66667777777776 56777766554


Q ss_pred             H
Q 044352          510 R  510 (544)
Q Consensus       510 ~  510 (544)
                      +
T Consensus       250 l  250 (308)
T KOG1585|consen  250 L  250 (308)
T ss_pred             H
Confidence            3

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.65  E-value=0.41  Score=41.90  Aligned_cols=192  Identities=18%  Similarity=0.094  Sum_probs=86.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcC-----CccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH-HH
Q 044352          322 GSALIDMYSKCGSLKDARTLFEITR-----IKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLS-AC  395 (544)
Q Consensus       322 ~~~l~~~~~~~~~~~~A~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~-~~  395 (544)
                      .......+...+++..+...+....     ......+......+...+++..+...+.........+ ......... .+
T Consensus        62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  140 (291)
T COG0457          62 LLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALGAL  140 (291)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHHH
Confidence            3333444444444444444443332     1222334444444444445555555555554432111 111111112 44


Q ss_pred             hcCCchHHHHHHHHHHHHHhCC--CCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCC-ChhHHHHHHHHHhhcCChH
Q 044352          396 SHGGLVEKGLEIFRSMKERYGV--KISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYV-TNSMAGAFRNGCNIHGRRD  470 (544)
Q Consensus       396 ~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~-~~~~~~~l~~~~~~~g~~~  470 (544)
                      ...|+++.+...+.+.... ..  ......+......+...++.+.|...+....  .+. ....+..+...+...++++
T Consensus       141 ~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  219 (291)
T COG0457         141 YELGDYEEALELYEKALEL-DPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYE  219 (291)
T ss_pred             HHcCCHHHHHHHHHHHHhc-CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccHH
Confidence            5555555555555555321 11  0122222233333445555555555555542  112 2344455555555555666


Q ss_pred             HHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          471 LAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       471 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      .|...+..+....|.....+..++..+...|.++++...+++..+
T Consensus       220 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         220 EALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             HHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            666666666666555444555555555555556666655555544

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=96.64  E-value=0.89  Score=45.64  Aligned_cols=210  Identities=12%  Similarity=0.145  Sum_probs=106.6

Q ss_pred             chHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh---cCCHHHHHHHHHhcCCc-cHHHHHHHHHHHH----hcCChHHHH
Q 044352          299 SIQIGREIHALVCRMGLHIDVFTGSALIDMYSK---CGSLKDARTLFEITRIK-NVASWNAMIGCYG----KHGMVDSSI  370 (544)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~A~~~~~~~~~~-~~~~~~~l~~~~~----~~g~~~~A~  370 (544)
                      +.+.|..++....+.|. |+....  +...+..   ..+...|.++|...... ....+..+..+|.    ...+...|.
T Consensus       308 d~~~A~~~~~~aA~~g~-~~a~~~--lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~  384 (552)
T KOG1550|consen  308 DYEKALKLYTKAAELGN-PDAQYL--LGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAF  384 (552)
T ss_pred             cHHHHHHHHHHHHhcCC-chHHHH--HHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHH
Confidence            44555555555555552 222222  2222222   12455666666555542 2222222222222    123566777


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHH---HHh----cCCHHHHHHH
Q 044352          371 ELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDM---LCR----SGRMVEAYDL  443 (544)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~---~~~----~g~~~~A~~~  443 (544)
                      .++.+..+.| .|...-....+..+.. +.++.+.-.+..+.+. +.......-..+...   ...    ..+...+...
T Consensus       385 ~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~-g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~~  461 (552)
T KOG1550|consen  385 AYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAEL-GYEVAQSNAAYLLDQSEEDLFSRGVISTLERAFSL  461 (552)
T ss_pred             HHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHh-hhhHHhhHHHHHHHhccccccccccccchhHHHHH
Confidence            7777777765 3332222222333333 5555555555554443 322111111111111   111    2245566666


Q ss_pred             HHhCCCCCChhHHHHHHHHHhh----cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhc---CChHHHHHHHHHHHhc
Q 044352          444 LRQVPMYVTNSMAGAFRNGCNI----HGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAAD---GEWHEAENLRKIMKEK  516 (544)
Q Consensus       444 ~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~  516 (544)
                      +.+.....+......+...|..    ..+++.|...|..+.+..   ......++..+...   ..+..|.+++++..+.
T Consensus       462 ~~~a~~~g~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~---~~~~~nlg~~~e~g~g~~~~~~a~~~~~~~~~~  538 (552)
T KOG1550|consen  462 YSRAAAQGNADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG---AQALFNLGYMHEHGEGIKVLHLAKRYYDQASEE  538 (552)
T ss_pred             HHHHHhccCHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh---hHHHhhhhhHHhcCcCcchhHHHHHHHHHHHhc
Confidence            6666555566666666655543    246888888888888777   77788888887654   1267888888887664


Q ss_pred             C
Q 044352          517 N  517 (544)
Q Consensus       517 ~  517 (544)
                      +
T Consensus       539 ~  539 (552)
T KOG1550|consen  539 D  539 (552)
T ss_pred             C
Confidence            3

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.59  E-value=0.0043  Score=34.90  Aligned_cols=32  Identities=13%  Similarity=0.012  Sum_probs=23.2

Q ss_pred             hHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC
Q 044352          454 SMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR  485 (544)
Q Consensus       454 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  485 (544)
                      .+|..++.++...|++++|+..|+++++++|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            35666777777778888888888888777775

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>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=96.58  E-value=0.042  Score=42.18  Aligned_cols=53  Identities=15%  Similarity=0.295  Sum_probs=46.2

Q ss_pred             CCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 044352          380 GMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLC  432 (544)
Q Consensus       380 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  432 (544)
                      ...|+..++.+++.+|+..|++..|.++++...+.++++.+..+|..|++-..
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            36789999999999999999999999999999999998888888888876443

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

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.55  E-value=0.1  Score=40.51  Aligned_cols=117  Identities=11%  Similarity=-0.029  Sum_probs=56.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 044352          357 IGCYGKHGMVDSSIELFERMLEEGMRA---NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR  433 (544)
Q Consensus       357 ~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  433 (544)
                      .....+.|++++|.+.|+.+... .+.   ....-..++.++.+.++++.|...+++.++.+...|+. -|...+.++..
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~v-dYa~Y~~gL~~   94 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNV-DYAYYMRGLSY   94 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCc-cHHHHHHHHHH
Confidence            33445556666666666666554 121   23344555556666666666666666665542222221 12222222221


Q ss_pred             cCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhH
Q 044352          434 SGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGF  490 (544)
Q Consensus       434 ~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  490 (544)
                      -...+.   .+..+.            ..=...+....|...|+++++.-|++..+-
T Consensus        95 ~~~~~~---~~~~~~------------~~drD~~~~~~A~~~f~~lv~~yP~S~ya~  136 (142)
T PF13512_consen   95 YEQDEG---SLQSFF------------RSDRDPTPARQAFRDFEQLVRRYPNSEYAA  136 (142)
T ss_pred             HHHhhh---HHhhhc------------ccccCcHHHHHHHHHHHHHHHHCcCChhHH
Confidence            111111   111110            011112336688899999999999876553

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=96.52  E-value=0.097  Score=43.35  Aligned_cols=152  Identities=19%  Similarity=0.120  Sum_probs=93.4

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc-hhHHHHHHHHHHhcCC
Q 044352          359 CYGKHGMVDSSIELFERMLEEGMRAN-EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS-KEHYACVVDMLCRSGR  436 (544)
Q Consensus       359 ~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~  436 (544)
                      .|-..|-+.-|.--|.+...  +.|+ +.+|+.+.-.+...|+++.|.+.|+...+-   .|. ..+...-+-++.--|+
T Consensus        74 lYDSlGL~~LAR~DftQaLa--i~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~EL---Dp~y~Ya~lNRgi~~YY~gR  148 (297)
T COG4785          74 LYDSLGLRALARNDFSQALA--IRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL---DPTYNYAHLNRGIALYYGGR  148 (297)
T ss_pred             hhhhhhHHHHHhhhhhhhhh--cCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhcc---CCcchHHHhccceeeeecCc
Confidence            34455666667666777666  4664 568888888889999999999999998763   333 1222222333445788


Q ss_pred             HHHHHHHHHhC----CCCCChhHHHHHHHHHhhcCChHHHH------------------------------HHHHHHHHc
Q 044352          437 MVEAYDLLRQV----PMYVTNSMAGAFRNGCNIHGRRDLAV------------------------------TMGEEFFEM  482 (544)
Q Consensus       437 ~~~A~~~~~~~----~~~~~~~~~~~l~~~~~~~g~~~~A~------------------------------~~~~~~~~~  482 (544)
                      +.-|.+-+.+.    +..|-...|.-+..   ..-++.+|.                              .+++++.+-
T Consensus       149 ~~LAq~d~~~fYQ~D~~DPfR~LWLYl~E---~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yLgkiS~e~l~~~~~a~  225 (297)
T COG4785         149 YKLAQDDLLAFYQDDPNDPFRSLWLYLNE---QKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYLGKISEETLMERLKAD  225 (297)
T ss_pred             hHhhHHHHHHHHhcCCCChHHHHHHHHHH---hhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHHhhccHHHHHHHHHhh
Confidence            88887665543    33333334432221   111222221                              222333222


Q ss_pred             CCCC-------chhHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 044352          483 GLRK-------PDGFVMLSNICAADGEWHEAENLRKIMKEKNV  518 (544)
Q Consensus       483 ~p~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  518 (544)
                      ..++       ..+|..|+.-+...|+.++|..+|+-.+..++
T Consensus       226 a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         226 ATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             ccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence            2222       35788999999999999999999998876654

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.51  E-value=1.1  Score=45.23  Aligned_cols=182  Identities=11%  Similarity=0.059  Sum_probs=116.7

Q ss_pred             hHHHHHHHhhccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCH
Q 044352           15 YLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNF   94 (544)
Q Consensus        15 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~   94 (544)
                      .+...+..+.+-.-++-|+.+...--..+.....++...+.-+-+.|++++|...|-+.+.--..  ..++.-|....+.
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~--s~Vi~kfLdaq~I  413 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEP--SEVIKKFLDAQRI  413 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCCh--HHHHHHhcCHHHH
Confidence            44555566666666666666554433323333336677777778899999999988776521111  3456667777777


Q ss_pred             HHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhc
Q 044352           95 QEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGM  174 (544)
Q Consensus        95 ~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  174 (544)
                      ..-..+++.+.+.|+. +...-..|+.+|.+.++.++-....+... .|.-  ..-....+..+.+.+-.++|.-+-...
T Consensus       414 knLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~  489 (933)
T KOG2114|consen  414 KNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKF  489 (933)
T ss_pred             HHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHh
Confidence            7888889999988875 55666788899999999888776665443 2210  112345566666777777777666555


Q ss_pred             cCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 044352          175 FERDVVSWTSMISGYCNVSKVDEAVVLFERMK  206 (544)
Q Consensus       175 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  206 (544)
                      .. +......++   -..+++++|+..+..+.
T Consensus       490 ~~-he~vl~ill---e~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  490 KK-HEWVLDILL---EDLHNYEEALRYISSLP  517 (933)
T ss_pred             cc-CHHHHHHHH---HHhcCHHHHHHHHhcCC
Confidence            44 333333333   34678888888887763

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.50  E-value=0.034  Score=49.07  Aligned_cols=115  Identities=9%  Similarity=0.015  Sum_probs=94.5

Q ss_pred             hcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-C-CCChhHH----HHHHHHHhhcCCh
Q 044352          396 SHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-M-YVTNSMA----GAFRNGCNIHGRR  469 (544)
Q Consensus       396 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~----~~l~~~~~~~g~~  469 (544)
                      ...|+..+|-..++++.+  ..|.|...+.-.-.++.-.|+.+.-...++++. . .++.+.+    ..+..++...|-+
T Consensus       114 ~~~g~~h~a~~~wdklL~--d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLD--DYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hccccccHHHHHHHHHHH--hCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            456888999999999988  567787888888888999999998888888874 2 3444322    2334466789999


Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHH
Q 044352          470 DLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKI  512 (544)
Q Consensus       470 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  512 (544)
                      ++|++..+++++++|.+.-+...++.++...|+..++.++..+
T Consensus       192 ~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  192 DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            9999999999999999999999999999999999999998765

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.48  E-value=0.14  Score=43.30  Aligned_cols=204  Identities=12%  Similarity=0.048  Sum_probs=95.6

Q ss_pred             HHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhC
Q 044352           49 LKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVG  125 (544)
Q Consensus        49 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~  125 (544)
                      .|..-..+|....++++|...+.+..   +.|...|.       ....+++|.-+.+++.+.  +--...|......|..
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfh-------AAKayEqaamLake~~kl--sEvvdl~eKAs~lY~E  103 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFH-------AAKAYEQAAMLAKELSKL--SEVVDLYEKASELYVE  103 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHH-------HHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHH
Confidence            45555666666777777777666654   22222222       122344555555555441  1122344555555666


Q ss_pred             CCChHHHHHHHHHHHHc--CCCCCh--hHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHH
Q 044352          126 LLDIKKGKQVHAVATQM--GFENDV--SVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVL  201 (544)
Q Consensus       126 ~~~~~~a~~~~~~~~~~--~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  201 (544)
                      .|.++.|-..++..-+.  +..|+.  ..|..-+......++...|..+           +......+.+...+++|-..
T Consensus       104 ~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el-----------~gk~sr~lVrl~kf~Eaa~a  172 (308)
T KOG1585|consen  104 CGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFEL-----------YGKCSRVLVRLEKFTEAATA  172 (308)
T ss_pred             hCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHH-----------HHHhhhHhhhhHHhhHHHHH
Confidence            66666555555544332  112221  1122222222222222222222           23334455555555555444


Q ss_pred             HHHHHHc----CCCCCH-hhHHHHHHHHHhcCChHHHHHHHHHhhhCC---CCCCHhHHHHHHHHHHcCCCHHHHHHHHH
Q 044352          202 FERMKLE----GLEPNQ-FTYNAIIASYARRGDSNAAFAFFSRMTAEG---FVPDLVTWNAMISGFAQSKRENEALKLFK  273 (544)
Q Consensus       202 ~~~~~~~----~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  273 (544)
                      +.+-...    .--++. ..|...|-.+.-..++..|.+.++.-.+.+   -.-+..+...|+.+| ..|+.+++.+++.
T Consensus       173 ~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  173 FLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             HHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHHc
Confidence            4332111    001221 234555555666677777777777743332   233555666677665 4566666555443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.46  E-value=0.0046  Score=37.32  Aligned_cols=42  Identities=5%  Similarity=-0.210  Sum_probs=32.6

Q ss_pred             cchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHH
Q 044352           13 VNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVG   55 (544)
Q Consensus        13 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~   55 (544)
                      |.++..+..++...|++++|.++++++++. |.+.. ++..++.
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~-a~~~La~   43 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRALALDPDDPE-AWRALAQ   43 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHH-HHHHhhh
Confidence            356788888888888888888888888888 66666 7666553

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.35  E-value=0.1  Score=46.73  Aligned_cols=223  Identities=15%  Similarity=0.021  Sum_probs=102.9

Q ss_pred             HHcCCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHc--CCCC---CHHHHHHHHHHHHh
Q 044352          259 FAQSKRENEALKLFKGMLVSG--IKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRM--GLHI---DVFTGSALIDMYSK  331 (544)
Q Consensus       259 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~---~~~~~~~l~~~~~~  331 (544)
                      +.+..+.++|+..+.+.+..-  ...--.++..+..+.+..|.++++...--..++.  ....   -...|..+.+++.+
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~   95 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456778888888887766431  1112234555566666666666654432111110  0011   12233344444444


Q ss_pred             cCCHHHHHHHHHhcCC-c-------cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC---C--CHHHHHHHHHHHhcC
Q 044352          332 CGSLKDARTLFEITRI-K-------NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMR---A--NEVTLISVLSACSHG  398 (544)
Q Consensus       332 ~~~~~~A~~~~~~~~~-~-------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~  398 (544)
                      ..++.+++.+-..-.. |       ......++..++...+.++++++.|+....--..   |  ...++..+...|...
T Consensus        96 l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   96 LCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            4444444443332111 0       1123334555555556666666666665542111   1  123555666666666


Q ss_pred             CchHHHHHHHHHHHHH---hCCCCchhHH-----HHHHHHHHhcCCHHHHHHHHHhCC----CCCC----hhHHHHHHHH
Q 044352          399 GLVEKGLEIFRSMKER---YGVKISKEHY-----ACVVDMLCRSGRMVEAYDLLRQVP----MYVT----NSMAGAFRNG  462 (544)
Q Consensus       399 ~~~~~a~~~~~~~~~~---~~~~~~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~  462 (544)
                      .++++|.-+..+..+.   +++..-..-|     ..+.-++...|..-+|.+..++..    ...|    ......++..
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            6666666555544331   1211111112     222334445555555555554431    1112    2233445555


Q ss_pred             HhhcCChHHHHHHHHHHHH
Q 044352          463 CNIHGRRDLAVTMGEEFFE  481 (544)
Q Consensus       463 ~~~~g~~~~A~~~~~~~~~  481 (544)
                      |...|+.+.|..-|+.++.
T Consensus       256 yR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHhcccHhHHHHHHHHHHH
Confidence            6666666666666665543

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.33  E-value=0.014  Score=47.44  Aligned_cols=113  Identities=10%  Similarity=0.015  Sum_probs=71.6

Q ss_pred             HHHHhcCCchHHHHHHHHHHHHHhCCCCch-----hHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC-hhHHHHHHHHHh
Q 044352          392 LSACSHGGLVEKGLEIFRSMKERYGVKISK-----EHYACVVDMLCRSGRMVEAYDLLRQVP-MYVT-NSMAGAFRNGCN  464 (544)
Q Consensus       392 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~  464 (544)
                      ..-+...|++++|..-|..+...  +++..     ..|..-..++.+.+.++.|++-..+.. ..|. ..+...-+.+|.
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~--cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeaye  179 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALES--CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYE  179 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHh--CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHH
Confidence            44567788888888888888774  33332     234445566777888888877776653 2332 233444455777


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHH
Q 044352          465 IHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEA  506 (544)
Q Consensus       465 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  506 (544)
                      +...+++|++-|+++++.+|....+-...+.+--..+...++
T Consensus       180 k~ek~eealeDyKki~E~dPs~~ear~~i~rl~~~i~ernEk  221 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKILESDPSRREAREAIARLPPKINERNEK  221 (271)
T ss_pred             hhhhHHHHHHHHHHHHHhCcchHHHHHHHHhcCHHHHHHHHH
Confidence            777888888888888888887666655555544333333333

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.32  E-value=0.14  Score=46.01  Aligned_cols=224  Identities=9%  Similarity=0.084  Sum_probs=141.2

Q ss_pred             HHhcCChHHHHHHHHHhhhC--CCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCCC---HHHHHHHHHHhhc
Q 044352          224 YARRGDSNAAFAFFSRMTAE--GFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVS--GIKPN---NVTVTGVLQAGGL  296 (544)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~  296 (544)
                      +....+.++++..+.+...+  +...-..++..+..+..+.|.+++++..--.-+..  .....   -..|..+.+++.+
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~   95 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34567888888888776543  11122346667778888888888877654332211  11111   2345555666666


Q ss_pred             cCchHHHHHHHHHHHHc-CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHhcCC-----c----cHHHHHHHHHHHHhc
Q 044352          297 TGSIQIGREIHALVCRM-GLHI---DVFTGSALIDMYSKCGSLKDARTLFEITRI-----K----NVASWNAMIGCYGKH  363 (544)
Q Consensus       297 ~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~----~~~~~~~l~~~~~~~  363 (544)
                      ..++.+++.+-..-... |..+   .......+..++...+.++++++.|+...+     .    ...++-.|...|.+.
T Consensus        96 l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   96 LCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            66666666665554443 2212   223444567778888889999999986653     1    234788899999999


Q ss_pred             CChHHHHHHHHHHHHc----CCCCCHH-----HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc----hhHHHHHHHH
Q 044352          364 GMVDSSIELFERMLEE----GMRANEV-----TLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS----KEHYACVVDM  430 (544)
Q Consensus       364 g~~~~A~~~~~~~~~~----~~~~~~~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~  430 (544)
                      .++++|.-+..+..+.    ++..-..     ...-+.-++...|.+-.|.+..++..+..-..-|    ......+.+.
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            9999999888776552    2111111     2233445677788888888888876553222223    3345567788


Q ss_pred             HHhcCCHHHHHHHHHhC
Q 044352          431 LCRSGRMVEAYDLLRQV  447 (544)
Q Consensus       431 ~~~~g~~~~A~~~~~~~  447 (544)
                      |...|+.+.|+.-|+.+
T Consensus       256 yR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHhcccHhHHHHHHHHH
Confidence            99999999998888764

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=96.26  E-value=1.1  Score=42.50  Aligned_cols=64  Identities=20%  Similarity=0.076  Sum_probs=40.2

Q ss_pred             CCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcC-CChHHHHHHhccCC
Q 044352           10 NLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGC-GDVNSARLVFDKIP   74 (544)
Q Consensus        10 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~   74 (544)
                      +.++..+...+.-|-+.+.+.+...+|..++.. |.++. +|..-+.-.... -.++.|+.+|.+..
T Consensus       102 ~~D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~Hp~~~d-LWI~aA~wefe~n~ni~saRalflrgL  167 (568)
T KOG2396|consen  102 NGDVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKHPNNPD-LWIYAAKWEFEINLNIESARALFLRGL  167 (568)
T ss_pred             CCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCch-hHHhhhhhHHhhccchHHHHHHHHHHh
Confidence            335556677777676666677777777777777 54555 555444433333 33777777777655

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=96.23  E-value=0.87  Score=41.11  Aligned_cols=19  Identities=16%  Similarity=-0.111  Sum_probs=13.3

Q ss_pred             HHhhcCChHHHHHHHHHHH
Q 044352          462 GCNIHGRRDLAVTMGEEFF  480 (544)
Q Consensus       462 ~~~~~g~~~~A~~~~~~~~  480 (544)
                      .+.+.+++++|..+|+-++
T Consensus       255 ~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  255 KHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHhhcCHHHHHHHHHHHH
Confidence            4556778888888877554

It is also involved in sporulation [].

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.13  E-value=0.62  Score=45.54  Aligned_cols=26  Identities=19%  Similarity=0.295  Sum_probs=15.3

Q ss_pred             HHHHHHHhhccCchHHHHHHHHHHHH
Q 044352          287 VTGVLQAGGLTGSIQIGREIHALVCR  312 (544)
Q Consensus       287 ~~~l~~~~~~~~~~~~a~~~~~~~~~  312 (544)
                      +..++....-.||.+.+.+.+....+
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~  216 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASK  216 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhc
Confidence            34455555556666666666666544

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.06  E-value=0.84  Score=39.39  Aligned_cols=57  Identities=21%  Similarity=0.098  Sum_probs=44.8

Q ss_pred             HHHHHHhhcCChHHHHHHHHHHHHcCCCCc---hhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          458 AFRNGCNIHGRRDLAVTMGEEFFEMGLRKP---DGFVMLSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       458 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      .++.-|.+.|.+..|..-++++++.-|+.+   .++..+..+|.+.|..++|.+.-+-+.
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~  231 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLG  231 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHH
Confidence            455678899999999999999999876544   456667788999999999988655443

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.94  E-value=0.43  Score=45.92  Aligned_cols=156  Identities=13%  Similarity=0.116  Sum_probs=93.3

Q ss_pred             HHHhcCCHHHHHHHHH--HHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCH
Q 044352           87 ASAFTGNFQEAIGYFS--LMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLL  164 (544)
Q Consensus        87 ~~~~~~~~~~A~~~~~--~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  164 (544)
                      ...-.++++++.++.+  ++.. .+  .......++..+.+.|..+.|+++-         .|+.+   -.....+.|++
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~---------~D~~~---rFeLAl~lg~L  334 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFV---------TDPDH---RFELALQLGNL  334 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHS---------S-HHH---HHHHHHHCT-H
T ss_pred             HHHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhc---------CChHH---HhHHHHhcCCH
Confidence            3455677777766664  2221 12  2444667777777788888877763         33322   23445678888


Q ss_pred             HHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044352          165 CSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEG  244 (544)
Q Consensus       165 ~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  244 (544)
                      +.|.++.++..  +...|..|.......|+++-|.+.|.+..         -|..|+-.|.-.|+.+...++.+.....|
T Consensus       335 ~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  335 DIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            88888777664  55688888888888888888888887754         24556667777788777777776666554


Q ss_pred             CCCCHhHHHHHHHHHHcCCCHHHHHHHHHH
Q 044352          245 FVPDLVTWNAMISGFAQSKRENEALKLFKG  274 (544)
Q Consensus       245 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  274 (544)
                            -++....++.-.|+.++..+++.+
T Consensus       404 ------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  404 ------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             -------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             ------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence                  244455555666777777776654

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.

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

Probab=95.79  E-value=0.021  Score=32.58  Aligned_cols=26  Identities=15%  Similarity=0.216  Sum_probs=21.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          489 GFVMLSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       489 ~~~~l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      ++..|+.+|.+.|++++|+++|++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46788999999999999999999865

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=95.78  E-value=0.019  Score=32.19  Aligned_cols=31  Identities=13%  Similarity=-0.014  Sum_probs=22.9

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHHHHHcCCC
Q 044352          455 MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR  485 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  485 (544)
                      +|..++..|...|++++|...|+++++++|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4566667777777888888888877777774

...

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

Probab=95.77  E-value=0.36  Score=45.66  Aligned_cols=60  Identities=10%  Similarity=-0.043  Sum_probs=44.5

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHHHHHcCCC--CchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          455 MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR--KPDGFVMLSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      +-..++.++.+.|+.++|++.++++++..|.  +-.+...|+.+|...+.+.++..++.+.-
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            3445666777888888888888888877664  44567778888888888888888877753

The molecular function of this protein is uncertain.

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

Probab=95.77  E-value=1.2  Score=42.38  Aligned_cols=102  Identities=12%  Similarity=0.061  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCC--CCChh--HHHHHHH
Q 044352          386 VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPM--YVTNS--MAGAFRN  461 (544)
Q Consensus       386 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~--~~~~l~~  461 (544)
                      .+-..+..++.+.|+.++|++.++++.+.+.......+...|+.++...+.+.++..++.+-..  -|...  .|...+-
T Consensus       260 y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALL  339 (539)
T PF04184_consen  260 YAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALL  339 (539)
T ss_pred             hhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHH
Confidence            3334566677789999999999999987533222445778899999999999999999988751  12222  3333222


Q ss_pred             HHhhcCC---------------hHHHHHHHHHHHHcCCCCc
Q 044352          462 GCNIHGR---------------RDLAVTMGEEFFEMGLRKP  487 (544)
Q Consensus       462 ~~~~~g~---------------~~~A~~~~~~~~~~~p~~~  487 (544)
                      -+...++               -..|.+.+.++++.||--|
T Consensus       340 kaRav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp  380 (539)
T PF04184_consen  340 KARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVP  380 (539)
T ss_pred             HHHhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCc
Confidence            2222222               2346788999999887544

The molecular function of this protein is uncertain.

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

Probab=95.76  E-value=0.098  Score=45.19  Aligned_cols=114  Identities=18%  Similarity=0.280  Sum_probs=69.8

Q ss_pred             HHHHHhhcc--CCChhhHHHHHHHHhc-----cCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHH
Q 044352          167 ARRVFHGMF--ERDVVSWTSMISGYCN-----VSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSR  239 (544)
Q Consensus       167 A~~~~~~~~--~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  239 (544)
                      .+..|..+.  ++|-.+|.+.+..+..     .+..+-....++.|.+.|+..|..+|+.|++.+-+..-          
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkf----------  122 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKF----------  122 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCccccc----------
Confidence            344555554  4677788877776654     35667777778889999999999999988877644221          


Q ss_pred             hhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCc
Q 044352          240 MTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGS  299 (544)
Q Consensus       240 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  299 (544)
                            .|... +....-.|-+  +-+=+++++++|...|+.||..+-..++.++.+.+-
T Consensus       123 ------iP~nv-fQ~~F~HYP~--QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  123 ------IPQNV-FQKVFLHYPQ--QQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             ------ccHHH-HHHHHhhCch--hhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                  12111 1111111111  122356667777777777777777777777666554

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.74  E-value=1.2  Score=38.54  Aligned_cols=174  Identities=13%  Similarity=0.066  Sum_probs=83.5

Q ss_pred             HHhcCChHHHHHHHHHhhhCC--CCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhcc----
Q 044352          224 YARRGDSNAAFAFFSRMTAEG--FVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLT----  297 (544)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----  297 (544)
                      -.+.|++++|.+.|+.+..+.  -+-...+--.++.++.+.++++.|+..+++.+..........|...+.+++..    
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~  123 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQID  123 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCC
Confidence            345677777777777776552  11123444555666777777777777777776543222222333333332211    


Q ss_pred             ---CchH---HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHH
Q 044352          298 ---GSIQ---IGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIE  371 (544)
Q Consensus       298 ---~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  371 (544)
                         .|..   .|..-|+.+++.= +.+..+              ..|...+..+...=...=..+.+-|.+.|.+..|..
T Consensus       124 ~~~rDq~~~~~A~~~f~~~i~ry-PnS~Ya--------------~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~n  188 (254)
T COG4105         124 DVTRDQSAARAAFAAFKELVQRY-PNSRYA--------------PDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAIN  188 (254)
T ss_pred             ccccCHHHHHHHHHHHHHHHHHC-CCCcch--------------hhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHH
Confidence               1111   2222222222221 111110              011110000000000011234556777888888888


Q ss_pred             HHHHHHHcCCCCC---HHHHHHHHHHHhcCCchHHHHHHHHHHHH
Q 044352          372 LFERMLEEGMRAN---EVTLISVLSACSHGGLVEKGLEIFRSMKE  413 (544)
Q Consensus       372 ~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  413 (544)
                      -+++|++. .+-+   ...+-.+..+|...|-.++|...-+-+..
T Consensus       189 R~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         189 RFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            88888775 2222   23455566677777777777766555543

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.72  E-value=0.054  Score=40.70  Aligned_cols=90  Identities=18%  Similarity=0.088  Sum_probs=65.3

Q ss_pred             HHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCH---HHHHHHHHHhhCCC
Q 044352           54 VGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNK---FTFSIVLKACVGLL  127 (544)
Q Consensus        54 ~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~---~~~~~ll~~~~~~~  127 (544)
                      +-+++..|+.+.|++.|....   |.++..||.-..++--+|+.++|++-+++..+..-..+.   ..|..-...|...|
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            445667888888888888765   677888888888888888888888888887765322222   23444445667778


Q ss_pred             ChHHHHHHHHHHHHcC
Q 044352          128 DIKKGKQVHAVATQMG  143 (544)
Q Consensus       128 ~~~~a~~~~~~~~~~~  143 (544)
                      +.+.|..-|+...+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            8888888888887776

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.61  E-value=2.6  Score=44.63  Aligned_cols=139  Identities=17%  Similarity=0.102  Sum_probs=82.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHH
Q 044352          325 LIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKG  404 (544)
Q Consensus       325 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  404 (544)
                      .+..-.++|-+.+|..++..-.+.-...|.+....+...+.+++|.-.|+..-+         ....+.+|...|+|.+|
T Consensus       914 ~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~  984 (1265)
T KOG1920|consen  914 CKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREA  984 (1265)
T ss_pred             HHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHH
Confidence            333344556666666655444444445666666677777888888777776543         23456677888888888


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHH
Q 044352          405 LEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEF  479 (544)
Q Consensus       405 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  479 (544)
                      ..+..++..  +-..-..+-..|+..+...+++-+|-++.......|...     ...+++...+++|.......
T Consensus       985 l~~a~ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd~~~a-----v~ll~ka~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen  985 LSLAAQLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSDPEEA-----VALLCKAKEWEEALRVASKA 1052 (1265)
T ss_pred             HHHHHhhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcCHHHH-----HHHHhhHhHHHHHHHHHHhc
Confidence            888777643  111112223566777778888888888877765333222     12344444566665554443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.50  E-value=0.96  Score=35.80  Aligned_cols=123  Identities=12%  Similarity=0.182  Sum_probs=56.2

Q ss_pred             HHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHH
Q 044352          119 VLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEA  198 (544)
Q Consensus       119 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  198 (544)
                      ++..+...+........++.+...+ +.+...++.++..|++.+ ..+....+..  ..+......+++.|.+.+-++++
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~~~yd~~~~~~~c~~~~l~~~~   88 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN--KSNHYDIEKVGKLCEKAKLYEEA   88 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--ccccCCHHHHHHHHHHcCcHHHH
Confidence            3444444445555555555555444 244445555555555432 2233333331  12223333455555555555555


Q ss_pred             HHHHHHHHHcCCCCCHhhHHHHHHHHHhc-CChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHH
Q 044352          199 VVLFERMKLEGLEPNQFTYNAIIASYARR-GDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFA  260 (544)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  260 (544)
                      .-++.++..         +...+..+... ++++.|.+++.+      ..+...|..++..+.
T Consensus        89 ~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~------~~~~~lw~~~~~~~l  136 (140)
T smart00299       89 VELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK------QNNPELWAEVLKALL  136 (140)
T ss_pred             HHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh------CCCHHHHHHHHHHHH
Confidence            555554421         11222223333 566666665554      224455665555544

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.45  E-value=1  Score=35.70  Aligned_cols=43  Identities=7%  Similarity=0.145  Sum_probs=24.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcC
Q 044352          219 AIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQS  262 (544)
Q Consensus       219 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  262 (544)
                      .++..+...+.......+++.+...+ ..+...++.++..|++.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~   54 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence            34455555556666666666665554 34555666666666554

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=95.43  E-value=0.28  Score=45.81  Aligned_cols=141  Identities=11%  Similarity=0.011  Sum_probs=90.9

Q ss_pred             hcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHH
Q 044352          396 SHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAV  473 (544)
Q Consensus       396 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~  473 (544)
                      ...|++-.|-+-+.....+  .+.++.............|+++.+...+....  ......+...++......|++++|.
T Consensus       300 ~~~gd~~aas~~~~~~lr~--~~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~  377 (831)
T PRK15180        300 LADGDIIAASQQLFAALRN--QQQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREAL  377 (831)
T ss_pred             hhccCHHHHHHHHHHHHHh--CCCCchhhHHHHHHHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHH
Confidence            3456666666555444443  23333333333444566788888887776653  2334456666777777788888888


Q ss_pred             HHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCceEEEecC---eeecccccc
Q 044352          474 TMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRN---EFVEKEVQN  540 (544)
Q Consensus       474 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~  540 (544)
                      ...+-++.-.-+++.+...-+......|-++++...|+++..-+  ++....|+...+   ||-.|.--+
T Consensus       378 s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~--~~~~~g~v~~~~~~~~~~~~~~~~  445 (831)
T PRK15180        378 STAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLN--PETQSGWVNFLSSTQYFNDGNAFS  445 (831)
T ss_pred             HHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccC--ChhcccceeeeccceeccCcchHH
Confidence            88888877776677776666666667788888888888887544  444455666555   777776443

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.43  E-value=3.4  Score=41.65  Aligned_cols=102  Identities=5%  Similarity=-0.101  Sum_probs=59.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccccc---CHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 044352           84 MVMASAFTGNFQEAIGYFSLMREFIYRC---NKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSK  160 (544)
Q Consensus        84 l~~~~~~~~~~~~A~~~~~~~~~~~~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  160 (544)
                      -+..+.+.+.+++|+++-+....  ..|   -.......+..+...|+++.|....-.|..    .+...|..-+..+..
T Consensus       362 hi~Wll~~k~yeeAl~~~k~~~~--~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~g----n~~~eWe~~V~~f~e  435 (846)
T KOG2066|consen  362 HIDWLLEKKKYEEALDAAKASIG--NEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLG----NNAAEWELWVFKFAE  435 (846)
T ss_pred             hHHHHHHhhHHHHHHHHHHhccC--CccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhc----chHHHHHHHHHHhcc
Confidence            46667778888888887766543  233   223345556666677777777777766653    345555555555666


Q ss_pred             CCCHHHHHHHHhhccC-CChhhHHHHHHHHhc
Q 044352          161 CGLLCSARRVFHGMFE-RDVVSWTSMISGYCN  191 (544)
Q Consensus       161 ~~~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~  191 (544)
                      .++......++-.-.. .+...|..++..+..
T Consensus       436 ~~~l~~Ia~~lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  436 LDQLTDIAPYLPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             ccccchhhccCCCCCcccCchHHHHHHHHHHH
Confidence            5555444333322222 345566666666555

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

Probab=95.38  E-value=0.24  Score=38.08  Aligned_cols=48  Identities=19%  Similarity=0.277  Sum_probs=27.4

Q ss_pred             CCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhC-CCCCCHhHHHHHHH
Q 044352          210 LEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAE-GFVPDLVTWNAMIS  257 (544)
Q Consensus       210 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~  257 (544)
                      ..|+..+..+++.+|+..+++..|+++.+...+. +++-+..+|..|+.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            3455666666666666666666666666655433 44445555555554

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

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.33  E-value=0.3  Score=39.98  Aligned_cols=127  Identities=12%  Similarity=0.052  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH--HHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHH-----
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTL--ISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHY-----  424 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----  424 (544)
                      .|..++.... .+.+ +.....+++....-.....++  ..+...+...+++++|...++.....   + ....+     
T Consensus        56 ~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~---t-~De~lk~l~~  129 (207)
T COG2976          56 QYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ---T-KDENLKALAA  129 (207)
T ss_pred             HHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc---c-hhHHHHHHHH
Confidence            4555554433 2233 444555555553211111222  22334456677777777776665532   2 22222     


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhCCCCCC-hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCC
Q 044352          425 ACVVDMLCRSGRMVEAYDLLRQVPMYVT-NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGL  484 (544)
Q Consensus       425 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  484 (544)
                      ..|.+.....|.+|+|...++....+.- ......-+.++...|+.++|+..|+++++.++
T Consensus       130 lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~  190 (207)
T COG2976         130 LRLARVQLQQKKADAALKTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESDA  190 (207)
T ss_pred             HHHHHHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccC
Confidence            2344555666777777777766542211 11222333456667777777777777776653

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

Probab=95.30  E-value=0.23  Score=43.00  Aligned_cols=99  Identities=9%  Similarity=0.020  Sum_probs=77.6

Q ss_pred             HHHHhccCC--CCCchhHHHHHHHHHh-----cCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCC-----------
Q 044352           66 ARLVFDKIP--NPNVFMLNWMVMASAF-----TGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLL-----------  127 (544)
Q Consensus        66 A~~~~~~~~--~~~~~~~~~l~~~~~~-----~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~-----------  127 (544)
                      .+..|..++  +.|..+|-..+..+..     .+..+-....++.|.+.|+.-|..+|+.|+..+-+..           
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            344566666  6777888888877754     3567777788899999999999999999998875432           


Q ss_pred             -----ChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCH
Q 044352          128 -----DIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLL  164 (544)
Q Consensus       128 -----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  164 (544)
                           .-+-+++++++|...|+.||..+-..+++++.+.+-.
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence                 2245788999999999999999999999998887653

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.27  E-value=0.38  Score=46.27  Aligned_cols=156  Identities=13%  Similarity=0.016  Sum_probs=86.4

Q ss_pred             HHhhccchhhhhhHHhH--HHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHHH
Q 044352           21 GKCMKSKALRQGKQVHA--LLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEA   97 (544)
Q Consensus        21 ~~~~~~g~~~~A~~~~~--~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A   97 (544)
                      ....-+|+++++.++.+  +++.. |  .. ..+.+++.+.+.|-.+.|+++...        -..-.....+.|+.+.|
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i~--~~-~~~~i~~fL~~~G~~e~AL~~~~D--------~~~rFeLAl~lg~L~~A  337 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNIP--KD-QGQSIARFLEKKGYPELALQFVTD--------PDHRFELALQLGNLDIA  337 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HH-HHHHHHHHHHHTT-HHHHHHHSS---------HHHHHHHHHHCT-HHHH
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccCC--hh-HHHHHHHHHHHCCCHHHHHhhcCC--------hHHHhHHHHhcCCHHHH
Confidence            34446688888766665  33332 3  23 457788888888888888887654        13334455667777777


Q ss_pred             HHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCC
Q 044352           98 IGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFER  177 (544)
Q Consensus        98 ~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  177 (544)
                      .++.++.      .+...|..|.....+.|+++-|...+.+...         +..|+-.|...|+.+.-.++.+.....
T Consensus       338 ~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  338 LEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            6654333      2555777777777777777777777765432         345556666777776666666554432


Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHH
Q 044352          178 DVVSWTSMISGYCNVSKVDEAVVLFER  204 (544)
Q Consensus       178 ~~~~~~~l~~~~~~~~~~~~a~~~~~~  204 (544)
                      ..  ++....++...|+.++..+++.+
T Consensus       403 ~~--~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  403 GD--INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             T---HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             cC--HHHHHHHHHHcCCHHHHHHHHHH
Confidence            21  33444444555677766666654

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.19  E-value=0.8  Score=36.69  Aligned_cols=50  Identities=16%  Similarity=0.172  Sum_probs=22.4

Q ss_pred             hccchhhhhhHHhHHHhhc-ccc--hhhHHHHHHHHhhcCCChHHHHHHhccCC
Q 044352           24 MKSKALRQGKQVHALLCTN-DLN--IFSLKSKLVGVYAGCGDVNSARLVFDKIP   74 (544)
Q Consensus        24 ~~~g~~~~A~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~   74 (544)
                      ++.|..++|..-|..+.+. ..+  .. +...........|+...|...|+++.
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvL-A~mr~at~~a~kgdta~AV~aFdeia  121 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVL-ARMRAATLLAQKGDTAAAVAAFDEIA  121 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHH-HHHHHHHHHhhcccHHHHHHHHHHHh
Confidence            3444555555555555554 111  11 22333334444555555555555543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.16  E-value=2  Score=37.41  Aligned_cols=196  Identities=15%  Similarity=0.036  Sum_probs=121.8

Q ss_pred             HHHHHHHHhhccCchHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--ccH-HHHHHHHH-HH
Q 044352          286 TVTGVLQAGGLTGSIQIGREIHALVCRM-GLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI--KNV-ASWNAMIG-CY  360 (544)
Q Consensus       286 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~-~~~~~l~~-~~  360 (544)
                      ........+...+++..+...+...... ........+......+...+++..+...+.....  ++. ........ .+
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (291)
T COG0457          61 LLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGAL  140 (291)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHH
Confidence            3344444444444455444444444331 1122344444555555556666666666665553  111 22222222 67


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCC----CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCC-chhHHHHHHHHHHhcC
Q 044352          361 GKHGMVDSSIELFERMLEEGMRA----NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKI-SKEHYACVVDMLCRSG  435 (544)
Q Consensus       361 ~~~g~~~~A~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  435 (544)
                      ...|+++.|...+.+....  .|    ....+......+...++.+.+...+......  .+. ....+..+...+...+
T Consensus       141 ~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         141 YELGDYEEALELYEKALEL--DPELNELAEALLALGALLEALGRYEEALELLEKALKL--NPDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHcCCHHHHHHHHHHHHhc--CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh--CcccchHHHHHhhHHHHHcc
Confidence            7888888888888888552  33    2333444444466778889999998888763  333 4677888888888888


Q ss_pred             CHHHHHHHHHhCC-CCCC-hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC
Q 044352          436 RMVEAYDLLRQVP-MYVT-NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR  485 (544)
Q Consensus       436 ~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  485 (544)
                      +++.|...+.... ..|+ ...+......+...+..+++...+++.++..|.
T Consensus       217 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         217 KYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             cHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            9999998888764 2333 344555555555777899999999999999986

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

Probab=95.11  E-value=0.04  Score=31.39  Aligned_cols=28  Identities=11%  Similarity=0.100  Sum_probs=22.0

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHHHHHc
Q 044352          455 MAGAFRNGCNIHGRRDLAVTMGEEFFEM  482 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~  482 (544)
                      ++..++..|.+.|++++|+.+|++++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4677888899999999999999996654

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.06  E-value=0.15  Score=45.00  Aligned_cols=61  Identities=15%  Similarity=0.174  Sum_probs=39.2

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          455 MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      ++..++..+...|+++.+...+++.++.+|-+...|..+..+|.+.|+...|+..|+++.+
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            3344555556666666666666666666666666666666666666666666666666643

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.96  E-value=0.028  Score=31.51  Aligned_cols=31  Identities=19%  Similarity=0.066  Sum_probs=18.9

Q ss_pred             hHHHhhc-ccchhhHHHHHHHHhhcCCChHHHH
Q 044352           36 HALLCTN-DLNIFSLKSKLVGVYAGCGDVNSAR   67 (544)
Q Consensus        36 ~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~   67 (544)
                      |+++++. |.+.. +++.++.+|...|++++|+
T Consensus         2 y~kAie~~P~n~~-a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPNNAE-AYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCCCHH-HHHHHHHHHHHCcCHHhhc
Confidence            4455555 55555 6666666666666666664

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.95  E-value=0.054  Score=30.23  Aligned_cols=30  Identities=17%  Similarity=0.179  Sum_probs=26.2

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          488 DGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       488 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .++..++.++...|++++|++.+++.++..
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            578899999999999999999999998754

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.91  E-value=0.72  Score=36.75  Aligned_cols=59  Identities=12%  Similarity=-0.101  Sum_probs=36.9

Q ss_pred             hHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC
Q 044352           15 YLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP   74 (544)
Q Consensus        15 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~   74 (544)
                      .+..++..-.+.++.+.+..+++-+.-. |.... .-..-+..+...|++.+|+.+|+.+.
T Consensus        12 gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e-~~~~~~~l~i~r~~w~dA~rlLr~l~   71 (160)
T PF09613_consen   12 GLIEVLSVALRLGDPDDAEALLDALRVLRPEFPE-LDLFDGWLHIVRGDWDDALRLLRELE   71 (160)
T ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHhCCCchH-HHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            3444455555666777777777666666 33333 55555666667777777777777766

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=94.78  E-value=0.079  Score=47.01  Aligned_cols=97  Identities=6%  Similarity=-0.113  Sum_probs=69.5

Q ss_pred             HHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCC
Q 044352          391 VLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGR  468 (544)
Q Consensus       391 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~  468 (544)
                      -..-|.+.|.+++|+.+|.....  -.+.++..+..-..+|.+..++..|..-.+.+.  ...-..+|..-+.+-...|.
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence            35678889999999999988764  223377778888889999999888877666553  12222334434444445688


Q ss_pred             hHHHHHHHHHHHHcCCCCchh
Q 044352          469 RDLAVTMGEEFFEMGLRKPDG  489 (544)
Q Consensus       469 ~~~A~~~~~~~~~~~p~~~~~  489 (544)
                      ..+|.+-++.++++.|++...
T Consensus       181 ~~EAKkD~E~vL~LEP~~~EL  201 (536)
T KOG4648|consen  181 NMEAKKDCETVLALEPKNIEL  201 (536)
T ss_pred             HHHHHHhHHHHHhhCcccHHH
Confidence            999999999999999985543

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=94.67  E-value=1.9  Score=34.89  Aligned_cols=131  Identities=7%  Similarity=0.039  Sum_probs=68.2

Q ss_pred             HHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHc
Q 044352          234 FAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRM  313 (544)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  313 (544)
                      .++++.+.+.+++|+...+..++..+.+.|++...    .+++..++-+|.......+-.+..  ....+.++--.|..+
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            45566667778888888888888888888886654    444455666666555444432222  222233222222221


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHH
Q 044352          314 GLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFE  374 (544)
Q Consensus       314 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  374 (544)
                      =    ...+..+++.+...|++-+|.++......-+......++.+-.+.+|...-..+++
T Consensus        88 L----~~~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~lf~~V~~  144 (167)
T PF07035_consen   88 L----GTAYEEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQLFYAVFR  144 (167)
T ss_pred             h----hhhHHHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHHHHHHHH
Confidence            0    01234455566666666666666655433222222334444444444443333333

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=94.57  E-value=11  Score=43.38  Aligned_cols=310  Identities=10%  Similarity=0.022  Sum_probs=156.0

Q ss_pred             HHHHHHHhCCCHHHHHHHHhhccC----CC--hhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh
Q 044352          153 ALIDMYSKCGLLCSARRVFHGMFE----RD--VVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYAR  226 (544)
Q Consensus       153 ~l~~~~~~~~~~~~A~~~~~~~~~----~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  226 (544)
                      .+..+=.+++.+.+|...++.-..    .+  ..-+..+...|...+++|.+.-+...-..   .|+  . ..-+.....
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a---~~s--l-~~qil~~e~ 1461 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFA---DPS--L-YQQILEHEA 1461 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc---Ccc--H-HHHHHHHHh
Confidence            344555677888888888887311    11  22344455588888888888877764111   222  2 234445567


Q ss_pred             cCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHH-HHHHHhhccCchHHHHH
Q 044352          227 RGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVT-GVLQAGGLTGSIQIGRE  305 (544)
Q Consensus       227 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~  305 (544)
                      .|++..|...|+.+.+.+ ++...+++-++......|.++.++-..+...... .+....++ .-+.+-=+.++++....
T Consensus      1462 ~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~~e~ 1539 (2382)
T KOG0890|consen 1462 SGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLLES 1539 (2382)
T ss_pred             hccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhhhh
Confidence            789999999999988774 4446778878877777888877776555544321 22222222 12222244555555555


Q ss_pred             HHHHHHHcCCCCCHHHHHH--HHHHHHhcCCHH-----HHHHHHHhcC-C-------c--cHHHHHHHHHHHHhcCChHH
Q 044352          306 IHALVCRMGLHIDVFTGSA--LIDMYSKCGSLK-----DARTLFEITR-I-------K--NVASWNAMIGCYGKHGMVDS  368 (544)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~--l~~~~~~~~~~~-----~A~~~~~~~~-~-------~--~~~~~~~l~~~~~~~g~~~~  368 (544)
                      .+.   ..    +...|..  ++....+..+-+     +.++..+... .       .  -...|..++..+.-..--..
T Consensus      1540 ~l~---~~----n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~el~~~ 1612 (2382)
T KOG0890|consen 1540 YLS---DR----NIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLELENS 1612 (2382)
T ss_pred             hhh---cc----cccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHHHHHH
Confidence            443   11    1111111  222222211111     0111111100 0       0  01234444333322111111


Q ss_pred             HHHHHHHHHHcCCCCCH------HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCC-----CchhHHHHHHHHHHhcCCH
Q 044352          369 SIELFERMLEEGMRANE------VTLISVLSACSHGGLVEKGLEIFRSMKERYGVK-----ISKEHYACVVDMLCRSGRM  437 (544)
Q Consensus       369 A~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~  437 (544)
                      ...    ..  ++.++.      .-|..-+..-....+..+-+--+++..-.....     .-..+|....+.....|++
T Consensus      1613 ~~~----l~--~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~ 1686 (2382)
T KOG0890|consen 1613 IEE----LK--KVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHL 1686 (2382)
T ss_pred             HHH----hh--ccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccH
Confidence            100    00  112211      112112211111111222111122211110111     2346777788888889999


Q ss_pred             HHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC
Q 044352          438 VEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG  483 (544)
Q Consensus       438 ~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  483 (544)
                      +.|...+-++....-+..+.-.+...++.|+...|+.++++.++++
T Consensus      1687 q~A~nall~A~e~r~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1687 QRAQNALLNAKESRLPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             HHHHHHHHhhhhcccchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            9998887666534455666677788899999999999999999766

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=94.57  E-value=0.072  Score=29.41  Aligned_cols=28  Identities=11%  Similarity=-0.026  Sum_probs=15.1

Q ss_pred             HHHHHHhhcCChHHHHHHHHHHHHcCCC
Q 044352          458 AFRNGCNIHGRRDLAVTMGEEFFEMGLR  485 (544)
Q Consensus       458 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~  485 (544)
                      .++.++...|++++|...|+++++..|+
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            3444555555555555555555555553

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.54  E-value=0.56  Score=38.53  Aligned_cols=88  Identities=11%  Similarity=0.041  Sum_probs=50.6

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 044352          358 GCYGKHGMVDSSIELFERMLEEGMRANE-----VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLC  432 (544)
Q Consensus       358 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  432 (544)
                      .-+...|++++|..-|...++. +++..     ..|..-..++.+.+.++.|+.-..+.++. + +........-..+|.
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel-~-pty~kAl~RRAeaye  179 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIEL-N-PTYEKALERRAEAYE  179 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhc-C-chhHHHHHHHHHHHH
Confidence            3456677777777777777765 33322     23444444566677777777766666542 1 112223333345666


Q ss_pred             hcCCHHHHHHHHHhCC
Q 044352          433 RSGRMVEAYDLLRQVP  448 (544)
Q Consensus       433 ~~g~~~~A~~~~~~~~  448 (544)
                      +..++++|++-|+++.
T Consensus       180 k~ek~eealeDyKki~  195 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKIL  195 (271)
T ss_pred             hhhhHHHHHHHHHHHH
Confidence            6777777777776653

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.53  E-value=0.075  Score=29.69  Aligned_cols=30  Identities=20%  Similarity=0.241  Sum_probs=26.4

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          488 DGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       488 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .+|..+|.++...|++++|+..|+++++.+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            578899999999999999999999998754

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.29  E-value=3  Score=35.47  Aligned_cols=91  Identities=15%  Similarity=0.070  Sum_probs=44.6

Q ss_pred             CchHHHHHHHHHHHHHhCCC----CchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCChhH-------H-HHHHHHHhh
Q 044352          399 GLVEKGLEIFRSMKERYGVK----ISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTNSM-------A-GAFRNGCNI  465 (544)
Q Consensus       399 ~~~~~a~~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~-------~-~~l~~~~~~  465 (544)
                      .+++.|+..|+..-+-+...    .....+..+...-...+++.+|+++|+++. ...+...       + ...+-++.-
T Consensus       128 ~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~  207 (288)
T KOG1586|consen  128 QDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLC  207 (288)
T ss_pred             HHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHh
Confidence            34555555555543322111    112233344444556777888888877753 1111111       1 111112223


Q ss_pred             cCChHHHHHHHHHHHHcCCCCchh
Q 044352          466 HGRRDLAVTMGEEFFEMGLRKPDG  489 (544)
Q Consensus       466 ~g~~~~A~~~~~~~~~~~p~~~~~  489 (544)
                      ..|.-.+...+++..+++|.-..+
T Consensus       208 ~~D~v~a~~ALeky~~~dP~F~ds  231 (288)
T KOG1586|consen  208 KADEVNAQRALEKYQELDPAFTDS  231 (288)
T ss_pred             cccHHHHHHHHHHHHhcCCccccc
Confidence            367777777777877888754443

>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=94.22  E-value=1.9  Score=32.92  Aligned_cols=67  Identities=12%  Similarity=0.153  Sum_probs=43.3

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCC
Q 044352          249 LVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLH  316 (544)
Q Consensus       249 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (544)
                      .......+..+..+|+-|+-.+++..+.+.+ .+++..+..+..+|.+.|+..++.+++.++.+.|.+
T Consensus        86 se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   86 SEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             -HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            3444556677777888888888887776533 677777777888888888888888888888777743

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.18  E-value=0.41  Score=38.08  Aligned_cols=83  Identities=18%  Similarity=0.035  Sum_probs=55.1

Q ss_pred             hHHHHHHHH---HHhcCCHHHHHHHHHhCC-CCCChh-HHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 044352          422 EHYACVVDM---LCRSGRMVEAYDLLRQVP-MYVTNS-MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI  496 (544)
Q Consensus       422 ~~~~~l~~~---~~~~g~~~~A~~~~~~~~-~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  496 (544)
                      .+...|+..   -.+.++.+++..++..+. ..|... .-..-+..+...|++.+|+.+++++.+..|..+..-..++.+
T Consensus         8 ~iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~C   87 (160)
T PF09613_consen    8 EIVGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALC   87 (160)
T ss_pred             HHHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHH
Confidence            344444443   346778888888887763 334333 223333456778888888888888877778777777777777


Q ss_pred             HHhcCChH
Q 044352          497 CAADGEWH  504 (544)
Q Consensus       497 ~~~~g~~~  504 (544)
                      +...|+.+
T Consensus        88 L~~~~D~~   95 (160)
T PF09613_consen   88 LYALGDPS   95 (160)
T ss_pred             HHHcCChH
Confidence            77777655

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.09  E-value=3.3  Score=35.22  Aligned_cols=56  Identities=11%  Similarity=-0.025  Sum_probs=34.3

Q ss_pred             HHHHhhcCChHHHHHHHHHHHHcCCCCchh-------HHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          460 RNGCNIHGRRDLAVTMGEEFFEMGLRKPDG-------FVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       460 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~-------~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      +.--...+++.+|+.+|++.....-+|+..       +..-+.++.-.++.-.+...+++..+
T Consensus       161 A~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~  223 (288)
T KOG1586|consen  161 AQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQE  223 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHh
Confidence            333457789999999999998866555532       33333344444555555555555443

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.05  E-value=0.75  Score=37.75  Aligned_cols=126  Identities=7%  Similarity=0.022  Sum_probs=68.6

Q ss_pred             chHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhh--HHHHHHHHhhcCCChHHHHHHhccCC-CCCchhHH-----HH
Q 044352           14 NYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFS--LKSKLVGVYAGCGDVNSARLVFDKIP-NPNVFMLN-----WM   84 (544)
Q Consensus        14 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~-----~l   84 (544)
                      ..|..++.+.. .+.. ......+++... +.+.+.  +...++..+..+|++++|...++... .+.-..+.     .|
T Consensus        55 ~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRL  132 (207)
T COG2976          55 AQYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRL  132 (207)
T ss_pred             HHHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHH
Confidence            34555555442 3333 444455555555 444431  23334556667777777777777554 22222222     23


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcC
Q 044352           85 VMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMG  143 (544)
Q Consensus        85 ~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  143 (544)
                      .+.....|.+++|+.+++.....+.  .......-...+...|+-++|..-|+.....+
T Consensus       133 Arvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         133 ARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            4455667777777777776655322  12223333456667777777777777777664

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.04  E-value=2.6  Score=33.91  Aligned_cols=119  Identities=10%  Similarity=0.067  Sum_probs=80.7

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHH-----HHHHHh
Q 044352          360 YGKHGMVDSSIELFERMLEEGMRANEV-TLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACV-----VDMLCR  433 (544)
Q Consensus       360 ~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-----~~~~~~  433 (544)
                      +.+.+..++|+.-|..+.+.|...-+. ............|+...|...|+++-..   .+.+.....+     ...+..
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~d---t~~P~~~rd~ARlraa~lLvD  144 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAAD---TSIPQIGRDLARLRAAYLLVD  144 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhcc---CCCcchhhHHHHHHHHHHHhc
Confidence            356778889999999988877544333 2223344566788999999999998754   2233233222     234567


Q ss_pred             cCCHHHHHHHHHhCCCCCC---hhHHHHHHHHHhhcCChHHHHHHHHHHHH
Q 044352          434 SGRMVEAYDLLRQVPMYVT---NSMAGAFRNGCNIHGRRDLAVTMGEEFFE  481 (544)
Q Consensus       434 ~g~~~~A~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  481 (544)
                      .|-+++.....+.+..+.+   ...-..|.-+-.+.|++..|.++|+.+..
T Consensus       145 ~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         145 NGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             cccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            8888888888777652222   34556677777889999999999998876

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=94.02  E-value=2  Score=35.60  Aligned_cols=97  Identities=11%  Similarity=0.017  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHH--HH
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANE--VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYA--CV  427 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~l  427 (544)
                      .+..+...|.+.|+.+.|++.|.++.+....+..  ..+..++......+++..+...+.++........+...-+  ..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            5666677777777777777777777765433332  3455666667777777777777776654311111111111  11


Q ss_pred             --HHHHHhcCCHHHHHHHHHhCC
Q 044352          428 --VDMLCRSGRMVEAYDLLRQVP  448 (544)
Q Consensus       428 --~~~~~~~g~~~~A~~~~~~~~  448 (544)
                        +-.+...+++.+|.+.|-...
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHccC
Confidence              112345678888877776654

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.

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=93.94  E-value=0.25  Score=41.84  Aligned_cols=63  Identities=10%  Similarity=-0.090  Sum_probs=50.7

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          455 MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .+.++..++...|++-++++...+.+...|.|..+|..-+.+....=+.++|..-|..+++..
T Consensus       232 LllNy~QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~ld  294 (329)
T KOG0545|consen  232 LLLNYCQCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKVLELD  294 (329)
T ss_pred             HHHhHHHHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHHHhcC
Confidence            344555667778888888888888888888888888888888888888888888888777654

>PRK09687 putative lyase; Provisional

Probab=93.87  E-value=4.8  Score=36.31  Aligned_cols=60  Identities=12%  Similarity=0.037  Sum_probs=26.7

Q ss_pred             cchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCH----HHHHHHHHHH
Q 044352           44 LNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNF----QEAIGYFSLM  104 (544)
Q Consensus        44 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~A~~~~~~~  104 (544)
                      ++.. +....+..+...|..+-...+..-...+|+..-...+.++...|+.    .++...+..+
T Consensus        35 ~d~~-vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l   98 (280)
T PRK09687         35 HNSL-KRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNL   98 (280)
T ss_pred             CCHH-HHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHH
Confidence            3444 4444555555555433222222222244444444445555555542    3455555544

>PRK11619 lytic murein transglycosylase; Provisional

Probab=93.87  E-value=8.8  Score=39.34  Aligned_cols=116  Identities=9%  Similarity=-0.030  Sum_probs=71.8

Q ss_pred             ccCchHHHHHHHHHHHHcC-CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHhcCCc--cHHHHHHHHHHHHhcCChHHHH
Q 044352          296 LTGSIQIGREIHALVCRMG-LHID--VFTGSALIDMYSKCGSLKDARTLFEITRIK--NVASWNAMIGCYGKHGMVDSSI  370 (544)
Q Consensus       296 ~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~  370 (544)
                      ...+.+.|...+....... ..+.  ..+...+.......+...+|...+......  +......-+..-...++++.+.
T Consensus       253 ar~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~~~~~~~e~r~r~Al~~~dw~~~~  332 (644)
T PRK11619        253 ARQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRSQSTSLLERRVRMALGTGDRRGLN  332 (644)
T ss_pred             HHhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccccCCcHHHHHHHHHHHHccCHHHHH
Confidence            3456688888888764443 2222  122333333333332366777777765432  4444455555556888999888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHH
Q 044352          371 ELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMK  412 (544)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  412 (544)
                      ..+..|... ..-...-.--+..++...|+.++|..+|+.+.
T Consensus       333 ~~i~~L~~~-~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        333 TWLARLPME-AKEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHHhcCHh-hccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            888887553 23344445556777777899999999999874

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=93.84  E-value=6.4  Score=37.72  Aligned_cols=48  Identities=17%  Similarity=0.149  Sum_probs=21.9

Q ss_pred             CHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 044352          283 NNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKC  332 (544)
Q Consensus       283 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  332 (544)
                      |......++..+.......-...+..++...|  .+...+..++++|...
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en  112 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN  112 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc
Confidence            34444444444544444444444444444443  2333444444444444

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=93.81  E-value=0.28  Score=30.78  Aligned_cols=37  Identities=11%  Similarity=0.046  Sum_probs=29.3

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHH
Q 044352          456 AGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVM  492 (544)
Q Consensus       456 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  492 (544)
                      ...++-++.+.|++++|++..+.+++.+|+|..+...
T Consensus         4 lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~L   40 (53)
T PF14853_consen    4 LYYLAIGHYKLGEYEKARRYCDALLEIEPDNRQAQSL   40 (53)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHHHH
Confidence            4456678899999999999999999999988776543

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=93.68  E-value=0.18  Score=40.68  Aligned_cols=30  Identities=7%  Similarity=-0.002  Sum_probs=13.4

Q ss_pred             hHHHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 044352          401 VEKGLEIFRSMKERYGVKISKEHYACVVDMLC  432 (544)
Q Consensus       401 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  432 (544)
                      ++.|.+.++.....  -|.|...++.-+.++.
T Consensus         7 FE~ark~aea~y~~--nP~DadnL~~WG~ALL   36 (186)
T PF06552_consen    7 FEHARKKAEAAYAK--NPLDADNLTNWGGALL   36 (186)
T ss_dssp             HHHHHHHHHHHHHH---TT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CcHhHHHHHHHHHHHH
Confidence            34455555554332  2445555555554444

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.57  E-value=0.53  Score=36.76  Aligned_cols=72  Identities=18%  Similarity=0.084  Sum_probs=41.9

Q ss_pred             hcCCHHHHHHHHHhCC-CCCChh-HHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChH
Q 044352          433 RSGRMVEAYDLLRQVP-MYVTNS-MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWH  504 (544)
Q Consensus       433 ~~g~~~~A~~~~~~~~-~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  504 (544)
                      ..++.+++..+++.+. ..|... .-..-+..+...|++++|..++++..+-.+..|..-..++.++.-.|+.+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~al~Dp~   95 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALCLNAKGDAE   95 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHHhcCChH
Confidence            4667777777776653 222222 22222335566777777777777776666655666666666666666554

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.53  E-value=0.17  Score=29.82  Aligned_cols=27  Identities=26%  Similarity=0.329  Sum_probs=12.9

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHHHHH
Q 044352          455 MAGAFRNGCNIHGRRDLAVTMGEEFFE  481 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  481 (544)
                      +++.++..|...|++++|+.+++++++
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            344444455555555555555555544

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.45  E-value=1.8  Score=33.97  Aligned_cols=59  Identities=12%  Similarity=-0.039  Sum_probs=40.2

Q ss_pred             HHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCCC
Q 044352           16 LDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPN   75 (544)
Q Consensus        16 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~   75 (544)
                      +..++..-...+++.++..+++-+.-. |.... .-..-+..+...|++++|+++|.++..
T Consensus        13 Li~~~~~aL~~~d~~D~e~lLdALrvLrP~~~e-~d~~dg~l~i~rg~w~eA~rvlr~l~~   72 (153)
T TIGR02561        13 LIEVLMYALRSADPYDAQAMLDALRVLRPNLKE-LDMFDGWLLIARGNYDEAARILRELLS   72 (153)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhCCCccc-cchhHHHHHHHcCCHHHHHHHHHhhhc
Confidence            334444455677888888887777776 33333 556666677788888888888888873

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=93.44  E-value=0.26  Score=43.95  Aligned_cols=92  Identities=16%  Similarity=0.064  Sum_probs=64.1

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC
Q 044352          357 IGCYGKHGMVDSSIELFERMLEEGMRA-NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSG  435 (544)
Q Consensus       357 ~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  435 (544)
                      ..-|.+.|.+++|+..|...+..  .| |+.++..-..+|.+...+..|..-.......  ...-...|..-+.+-...|
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaL--d~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIAL--DKLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHh--hHHHHHHHHHHHHHHHHHh
Confidence            45689999999999999998884  55 8899999999999999998888776666542  0111223444444444566


Q ss_pred             CHHHHHHHHHhCC-CCCC
Q 044352          436 RMVEAYDLLRQVP-MYVT  452 (544)
Q Consensus       436 ~~~~A~~~~~~~~-~~~~  452 (544)
                      +..+|.+-++... ..|.
T Consensus       180 ~~~EAKkD~E~vL~LEP~  197 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPK  197 (536)
T ss_pred             hHHHHHHhHHHHHhhCcc
Confidence            7777776666553 4444

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.43  E-value=7  Score=36.79  Aligned_cols=150  Identities=9%  Similarity=0.005  Sum_probs=84.6

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHhcCCchHHHHHHHHHHHHH-hCCCCchhHH
Q 044352          349 NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRA---NEVTLISVLSACSHGGLVEKGLEIFRSMKER-YGVKISKEHY  424 (544)
Q Consensus       349 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~  424 (544)
                      ...+|..++..+.+.|.++.|...+.++...+...   .+.....-+......|+..+|+..++..... .....+....
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~~  224 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSISN  224 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhccccccH
Confidence            44578888888888999999999888887743211   3344455566667778888888888877762 1111111111


Q ss_pred             HHHHHHHHhcCCHHHHHHH-HHhCCCCCChhHHHHHHHHHhh------cCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044352          425 ACVVDMLCRSGRMVEAYDL-LRQVPMYVTNSMAGAFRNGCNI------HGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC  497 (544)
Q Consensus       425 ~~l~~~~~~~g~~~~A~~~-~~~~~~~~~~~~~~~l~~~~~~------~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  497 (544)
                      ..+...+..  ..+..... ........-...+..++.-...      .++.+++...|+++.+..|....+|..++..+
T Consensus       225 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~~  302 (352)
T PF02259_consen  225 AELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWALFN  302 (352)
T ss_pred             HHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHHHH
Confidence            111111000  00000000 0000000001122223333333      38899999999999999999999999888876


Q ss_pred             Hhc
Q 044352          498 AAD  500 (544)
Q Consensus       498 ~~~  500 (544)
                      .+.
T Consensus       303 ~~~  305 (352)
T PF02259_consen  303 DKL  305 (352)
T ss_pred             HHH
Confidence            655

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=93.27  E-value=20  Score=41.62  Aligned_cols=314  Identities=15%  Similarity=0.080  Sum_probs=170.0

Q ss_pred             HHHHHHhccCChhHHHHHHHHH----HHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHH
Q 044352          184 SMISGYCNVSKVDEAVVLFERM----KLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGF  259 (544)
Q Consensus       184 ~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  259 (544)
                      ++..+-.+.+.+..|...++.-    ++.  .....-|..+...|...+++|...-+...-..   .|+  .+. -+...
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~--~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a---~~s--l~~-qil~~ 1459 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEK--ETEEALYFLLQNLYGSIHDPDGVEGVSARRFA---DPS--LYQ-QILEH 1459 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchh--HHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc---Ccc--HHH-HHHHH
Confidence            4445566677888888888773    211  11223344455588888888887776653111   232  222 34455


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 044352          260 AQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDAR  339 (544)
Q Consensus       260 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  339 (544)
                      ...|+++.|...|+.+.+.+ ++...++..++......+.++......+-......+.....++.-+.+--+.++++...
T Consensus      1460 e~~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~se~~~~~~s~~~eaaW~l~qwD~~e 1538 (2382)
T KOG0890|consen 1460 EASGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINRSEEVDELNSLGVEAAWRLSQWDLLE 1538 (2382)
T ss_pred             HhhccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhccCHHHHHHHHHHHHHHhhhcchhhhh
Confidence            67888999999999888654 33366677777777777777766665554433321112222333344445667777666


Q ss_pred             HHHHhcCCccHHHHHHH--HHHHHhcCChH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHH----
Q 044352          340 TLFEITRIKNVASWNAM--IGCYGKHGMVD--SSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSM----  411 (544)
Q Consensus       340 ~~~~~~~~~~~~~~~~l--~~~~~~~g~~~--~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----  411 (544)
                      ....   ..+...|...  +....+...-+  .-.+.++.+.+.-+.|        +.+|...|.+..+.++.-++    
T Consensus      1539 ~~l~---~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~--------lsa~s~~~Sy~~~Y~~~~kLH~l~ 1607 (2382)
T KOG0890|consen 1539 SYLS---DRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIEN--------LSACSIEGSYVRSYEILMKLHLLL 1607 (2382)
T ss_pred             hhhh---cccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhh--------HHHhhccchHHHHHHHHHHHHHHH
Confidence            6655   3333334333  33333322222  1122333333321111        11222222222222221111    


Q ss_pred             ------HHHhCCCCch------hHHHHHHHHHHhcCCHHHHHHHHHhC------C---CCCChhHHHHHHHHHhhcCChH
Q 044352          412 ------KERYGVKISK------EHYACVVDMLCRSGRMVEAYDLLRQV------P---MYVTNSMAGAFRNGCNIHGRRD  470 (544)
Q Consensus       412 ------~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~------~---~~~~~~~~~~l~~~~~~~g~~~  470 (544)
                            ....++.++.      ..|..-+..-....+..+-+--+++.      .   ...-...|...++..+..|+++
T Consensus      1608 el~~~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q 1687 (2382)
T KOG0890|consen 1608 ELENSIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQ 1687 (2382)
T ss_pred             HHHHHHHHhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHH
Confidence                  1111222222      22222222111111122222112211      1   1223568889999999999999


Q ss_pred             HHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 044352          471 LAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQ  519 (544)
Q Consensus       471 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  519 (544)
                      .|...+-.+.+..+  +.++...+..+...|+...|+.++++.++.+..
T Consensus      1688 ~A~nall~A~e~r~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~~ 1734 (2382)
T KOG0890|consen 1688 RAQNALLNAKESRL--PEIVLERAKLLWQTGDELNALSVLQEILSKNFP 1734 (2382)
T ss_pred             HHHHHHHhhhhccc--chHHHHHHHHHHhhccHHHHHHHHHHHHHhhcc
Confidence            99999999988884  688999999999999999999999999976543

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=93.24  E-value=4.5  Score=34.02  Aligned_cols=191  Identities=19%  Similarity=0.089  Sum_probs=109.8

Q ss_pred             HHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhC
Q 044352           49 LKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVG  125 (544)
Q Consensus        49 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~  125 (544)
                      .+...+..|-..|-+.-|+.-|....   |.-+..||-+.--+...|+++.|.+.|+...+.+..-+-...|.-|. +--
T Consensus        67 l~fERGvlYDSlGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~-~YY  145 (297)
T COG4785          67 LLFERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIA-LYY  145 (297)
T ss_pred             HHHHhcchhhhhhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcccee-eee
Confidence            33334444555555566666555543   55567788888888889999999999998888543322222333232 334


Q ss_pred             CCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHH-HHhhccCCChhhHHHHHHHHhccCChhHHHHHHHH
Q 044352          126 LLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARR-VFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFER  204 (544)
Q Consensus       126 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  204 (544)
                      .|++..|.+-+...-+.. +.|+. ...-+-.--..-++.+|.. +.++....|..-|...+-.+.- |+. ....++++
T Consensus       146 ~gR~~LAq~d~~~fYQ~D-~~DPf-R~LWLYl~E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yL-gki-S~e~l~~~  221 (297)
T COG4785         146 GGRYKLAQDDLLAFYQDD-PNDPF-RSLWLYLNEQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYL-GKI-SEETLMER  221 (297)
T ss_pred             cCchHhhHHHHHHHHhcC-CCChH-HHHHHHHHHhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHH-hhc-cHHHHHHH
Confidence            678888887777766653 22221 1111222223445666654 4455566666666555444332 211 11233333


Q ss_pred             HHHcCCC------CCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044352          205 MKLEGLE------PNQFTYNAIIASYARRGDSNAAFAFFSRMTAEG  244 (544)
Q Consensus       205 ~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  244 (544)
                      +......      .=..||-.+...+...|+.++|..+|+-....+
T Consensus       222 ~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         222 LKADATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             HHhhccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            3322111      113577888999999999999999999887543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.91  E-value=0.61  Score=41.25  Aligned_cols=71  Identities=11%  Similarity=0.097  Sum_probs=43.0

Q ss_pred             HHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHh-----cccccCHHHHHHH
Q 044352           49 LKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMRE-----FIYRCNKFTFSIV  119 (544)
Q Consensus        49 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~p~~~~~~~l  119 (544)
                      ++..++..+..+|+++.+.+.++++.   +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            55556666666666666666666655   44555666666666666666666666666544     3455554444333

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=92.81  E-value=0.18  Score=26.13  Aligned_cols=24  Identities=29%  Similarity=0.313  Sum_probs=17.6

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHH
Q 044352          488 DGFVMLSNICAADGEWHEAENLRK  511 (544)
Q Consensus       488 ~~~~~l~~~~~~~g~~~~A~~~~~  511 (544)
                      .+...++.++...|+.++|...++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            456677778888888888877765

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=92.79  E-value=0.17  Score=27.79  Aligned_cols=29  Identities=14%  Similarity=0.163  Sum_probs=26.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          489 GFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       489 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ++..++.++.+.|++++|++.|+++++.-
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~   30 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKRY   30 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            56789999999999999999999998754

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=92.52  E-value=3  Score=32.01  Aligned_cols=73  Identities=12%  Similarity=0.036  Sum_probs=49.1

Q ss_pred             CCchhHHHHHHHHHHhcCCHH---HHHHHHHhCC--CCCC--hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhH
Q 044352          418 KISKEHYACVVDMLCRSGRMV---EAYDLLRQVP--MYVT--NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGF  490 (544)
Q Consensus       418 ~~~~~~~~~l~~~~~~~g~~~---~A~~~~~~~~--~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  490 (544)
                      .++..+-..+..++.+..+.+   +.+.+++.+.  .+|+  .....-++-++.+.+++++++++.+..++.+|+|+.+.
T Consensus        29 ~~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n~Qa~  108 (149)
T KOG3364|consen   29 DVSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNNRQAL  108 (149)
T ss_pred             cchHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCcHHHH
Confidence            556666667777777665443   4556666553  2222  33445566688899999999999999999999766543

>PRK10941 hypothetical protein; Provisional

Probab=92.44  E-value=0.83  Score=40.54  Aligned_cols=63  Identities=14%  Similarity=0.034  Sum_probs=52.6

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 044352          456 AGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNV  518 (544)
Q Consensus       456 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  518 (544)
                      ..++-.+|.+.++++.|....+.++.+.|++|.-+.-.|.+|.+.|.+..|..=++..++...
T Consensus       184 l~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P  246 (269)
T PRK10941        184 LDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCP  246 (269)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCC
Confidence            345556788889999999999999999999888888888999999999999888888877653

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=92.43  E-value=0.57  Score=39.67  Aligned_cols=80  Identities=10%  Similarity=-0.056  Sum_probs=46.1

Q ss_pred             cCCHHHHHHHHHhCC-CCCCh-hHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHH
Q 044352          434 SGRMVEAYDLLRQVP-MYVTN-SMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRK  511 (544)
Q Consensus       434 ~g~~~~A~~~~~~~~-~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  511 (544)
                      ..+++.|+..|.+.. ..|.+ ..|..-+-.+.+..+++.+..--++++++.|+.......++..+.....+++|+..+.
T Consensus        23 ~k~y~~ai~~y~raI~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~eaI~~Lq  102 (284)
T KOG4642|consen   23 PKRYDDAIDCYSRAICINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEAIKVLQ  102 (284)
T ss_pred             hhhhchHHHHHHHHHhcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccHHHHHHH
Confidence            344555555554432 34444 3334444455556666666666666666666666666666666666666666666666


Q ss_pred             HH
Q 044352          512 IM  513 (544)
Q Consensus       512 ~~  513 (544)
                      +.
T Consensus       103 ra  104 (284)
T KOG4642|consen  103 RA  104 (284)
T ss_pred             HH
Confidence            65

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=92.43  E-value=0.33  Score=26.93  Aligned_cols=29  Identities=21%  Similarity=0.255  Sum_probs=26.2

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          488 DGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       488 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      .+|..++.+|...|++++|...|++.++.
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            46888999999999999999999998864

...

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=92.42  E-value=0.57  Score=37.94  Aligned_cols=43  Identities=9%  Similarity=-0.082  Sum_probs=26.4

Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          468 RRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       468 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .+++|...|+++.+.+|.|......|-.+       ++|-++..++.+.+
T Consensus        95 ~F~kA~~~FqkAv~~~P~ne~Y~ksLe~~-------~kap~lh~e~~~~~  137 (186)
T PF06552_consen   95 YFEKATEYFQKAVDEDPNNELYRKSLEMA-------AKAPELHMEIHKQG  137 (186)
T ss_dssp             HHHHHHHHHHHHHHH-TT-HHHHHHHHHH-------HTHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHHhcCCCcHHHHHHHHHH-------HhhHHHHHHHHHHH
Confidence            47788888999999999776665555332       24555555554443

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>smart00028 TPR Tetratricopeptide repeats

Probab=92.38  E-value=0.28  Score=26.39  Aligned_cols=29  Identities=21%  Similarity=0.086  Sum_probs=15.2

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHHHHHcCC
Q 044352          456 AGAFRNGCNIHGRRDLAVTMGEEFFEMGL  484 (544)
Q Consensus       456 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  484 (544)
                      +..++..+...|+++.|...++++++.+|
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            34444455555555555555555555544

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>PF04910 Tcf25: Transcriptional repressor TCF25; InterPro: IPR006994 This entry appears to represent a novel family of basic helix-loop-helix (bHLH) proteins that control differentiation and development of a variety of organs [, ]

Probab=92.14  E-value=5.1  Score=37.65  Aligned_cols=59  Identities=8%  Similarity=0.092  Sum_probs=49.2

Q ss_pred             HHHHHHHhhcCChHHHHHHHHHHHHcCCC-CchhHHHHHHHHH-hcCChHHHHHHHHHHHh
Q 044352          457 GAFRNGCNIHGRRDLAVTMGEEFFEMGLR-KPDGFVMLSNICA-ADGEWHEAENLRKIMKE  515 (544)
Q Consensus       457 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~  515 (544)
                      ...+..+.+.|-+..|.++.+-++.++|. ||......++.|+ +.++++--+++.+....
T Consensus       107 ~r~i~~L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~ALrs~~y~~Li~~~~~~~~  167 (360)
T PF04910_consen  107 FRYIQSLGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYALRSRQYQWLIDFSESPLA  167 (360)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHhcCCHHHHHHHHHhHhh
Confidence            33445677899999999999999999998 8888888877765 88999988888887665

Human Nulp1 (Q2MK75 from SWISSPROT) is a basic helix-loop-helix protein expressed broadly during early embryonic organogenesis. Over expression of human Nulp1 in COS-7 cells inhibits the transcriptional activity of serum response factor (SRF), suggesting that Nulp1 may act as a novel bHLH transcriptional repressor in the SRF signalling pathway to mediate cellular functions [].

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=92.00  E-value=0.038  Score=44.10  Aligned_cols=85  Identities=13%  Similarity=0.114  Sum_probs=63.1

Q ss_pred             HHHHHhhccchhhhhhHHhHHHhhc--ccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHH
Q 044352           18 CLLGKCMKSKALRQGKQVHALLCTN--DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQ   95 (544)
Q Consensus        18 ~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   95 (544)
                      .++..+.+.+.+......++.+.+.  ..+.. .++.++..|++.++.+...+.++....   .-...++..+.+.|-++
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~-~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~   87 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPD-LHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYE   87 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHH-HHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHH-HHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHH
Confidence            3566677789999999999999976  44466 889999999999888999998885433   33355677777778888


Q ss_pred             HHHHHHHHHHh
Q 044352           96 EAIGYFSLMRE  106 (544)
Q Consensus        96 ~A~~~~~~~~~  106 (544)
                      +|.-++.++..
T Consensus        88 ~a~~Ly~~~~~   98 (143)
T PF00637_consen   88 EAVYLYSKLGN   98 (143)
T ss_dssp             HHHHHHHCCTT
T ss_pred             HHHHHHHHccc
Confidence            88777776543

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.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=91.93  E-value=0.35  Score=28.40  Aligned_cols=29  Identities=28%  Similarity=0.272  Sum_probs=25.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          488 DGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       488 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      .++..++.+|...|++++|..+++++++.
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~   31 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALEI   31 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHHH
Confidence            46889999999999999999999998753

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=91.88  E-value=5.9  Score=37.68  Aligned_cols=106  Identities=13%  Similarity=0.026  Sum_probs=65.9

Q ss_pred             HhcCCchHHHHHHHHHHH--HHhCCCCch-----hHHHHHHHHHHhcCCHHHHHHHHHhCC-------------------
Q 044352          395 CSHGGLVEKGLEIFRSMK--ERYGVKISK-----EHYACVVDMLCRSGRMVEAYDLLRQVP-------------------  448 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~--~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~-------------------  448 (544)
                      +.-.|++..|.+++...-  +..|...++     ..++.++-.+.+.|.+.-+..+|.++.                   
T Consensus       250 eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tl  329 (696)
T KOG2471|consen  250 EYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTL  329 (696)
T ss_pred             HHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceeh
Confidence            344567777766654331  111111111     123445555555666555555554331                   


Q ss_pred             -CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhc
Q 044352          449 -MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAAD  500 (544)
Q Consensus       449 -~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  500 (544)
                       ....-...+..+-.|...|+.-.|.+.|.++.+..-.||..|..++.+|...
T Consensus       330 s~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~vfh~nPrlWLRlAEcCima  382 (696)
T KOG2471|consen  330 SQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHVFHRNPRLWLRLAECCIMA  382 (696)
T ss_pred             hcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence             1122334455666888999999999999999999988999999999998754

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=91.73  E-value=0.011  Score=47.20  Aligned_cols=83  Identities=13%  Similarity=0.079  Sum_probs=50.2

Q ss_pred             HHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHH
Q 044352          119 VLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEA  198 (544)
Q Consensus       119 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  198 (544)
                      ++..+.+.+.+.....+++.+...+...+....+.++..|++.++.++...+++....   .-...++..+.+.|-++++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHHH
Confidence            4556666777777777777777665556677777888888887777777777663322   2233444555555555555


Q ss_pred             HHHHHH
Q 044352          199 VVLFER  204 (544)
Q Consensus       199 ~~~~~~  204 (544)
                      .-++.+
T Consensus        90 ~~Ly~~   95 (143)
T PF00637_consen   90 VYLYSK   95 (143)
T ss_dssp             HHHHHC
T ss_pred             HHHHHH
Confidence            554444

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.

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=91.68  E-value=0.53  Score=45.32  Aligned_cols=99  Identities=12%  Similarity=-0.005  Sum_probs=70.4

Q ss_pred             cCCchHHHHHHHHHHHHHhCCCCc--hhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHH
Q 044352          397 HGGLVEKGLEIFRSMKERYGVKIS--KEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       397 ~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A  472 (544)
                      ..|+...|...+..+.-   ..|-  ......+...+.+.|...+|-.++.+..  ....+.++..+++++....+.+.|
T Consensus       619 ~~gn~~~a~~cl~~a~~---~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~~g~~~l~l~~i~~a  695 (886)
T KOG4507|consen  619 AVGNSTFAIACLQRALN---LAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAINSSEPLTFLSLGNAYLALKNISGA  695 (886)
T ss_pred             ecCCcHHHHHHHHHHhc---cChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHhcchhHHHHhhhHHH
Confidence            46778888887776653   2332  2234456667777777778877776642  345667778888888888889999


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          473 VTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      ++.|+.+++++|+++..-..|..+-+
T Consensus       696 ~~~~~~a~~~~~~~~~~~~~l~~i~c  721 (886)
T KOG4507|consen  696 LEAFRQALKLTTKCPECENSLKLIRC  721 (886)
T ss_pred             HHHHHHHHhcCCCChhhHHHHHHHHH
Confidence            99999999999888888777655544

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=91.44  E-value=23  Score=38.07  Aligned_cols=113  Identities=9%  Similarity=0.078  Sum_probs=64.8

Q ss_pred             CCCHHHHHHHH----HHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHH---
Q 044352          281 KPNNVTVTGVL----QAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASW---  353 (544)
Q Consensus       281 ~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---  353 (544)
                      .|+...+....    ..+.....+++|.-.|...-+.         ...+.+|..+|+|.+|..+-.++...-....   
T Consensus       932 ~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a 1002 (1265)
T KOG1920|consen  932 KPDSEKQKVIYEAYADHLREELMSDEAALMYERCGKL---------EKALKAYKECGDWREALSLAAQLSEGKDELVILA 1002 (1265)
T ss_pred             ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHH
Confidence            34544444333    3344455566666555543221         2346677778888888888777765433322   


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHH
Q 044352          354 NAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRS  410 (544)
Q Consensus       354 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  410 (544)
                      ..|+.-+...+++-+|-++..+....   |     .-.+..+++...|++|..+...
T Consensus      1003 ~~L~s~L~e~~kh~eAa~il~e~~sd---~-----~~av~ll~ka~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1003 EELVSRLVEQRKHYEAAKILLEYLSD---P-----EEAVALLCKAKEWEEALRVASK 1051 (1265)
T ss_pred             HHHHHHHHHcccchhHHHHHHHHhcC---H-----HHHHHHHhhHhHHHHHHHHHHh
Confidence            56777777788888888877776552   1     2223344555556666555443

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=91.32  E-value=0.83  Score=32.67  Aligned_cols=54  Identities=13%  Similarity=-0.058  Sum_probs=29.1

Q ss_pred             CChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC--CchhHHHHHHHHHhcCChH
Q 044352          451 VTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR--KPDGFVMLSNICAADGEWH  504 (544)
Q Consensus       451 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~  504 (544)
                      .|......++..+...|++++|++.+-++++.+|.  +..+-..++.++.-.|.-+
T Consensus        20 ~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg~~~   75 (90)
T PF14561_consen   20 DDLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLGPGD   75 (90)
T ss_dssp             T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-TT-
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcCCCC
Confidence            34455566666666666666666666666666543  3445555666665555543

>PRK12798 chemotaxis protein; Reviewed

Probab=91.05  E-value=14  Score=34.81  Aligned_cols=182  Identities=14%  Similarity=0.121  Sum_probs=113.1

Q ss_pred             cCCHHHHHHHHHhcCCc----cHHHHHHHHHHH-HhcCChHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHhcCCchH
Q 044352          332 CGSLKDARTLFEITRIK----NVASWNAMIGCY-GKHGMVDSSIELFERMLEEGMRAN----EVTLISVLSACSHGGLVE  402 (544)
Q Consensus       332 ~~~~~~A~~~~~~~~~~----~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~  402 (544)
                      .|+.+++.+.+..+...    ....+-.|+.+- ....++..|+++|+...-.  .|.    ...+..-+......|+.+
T Consensus       125 ~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRLl--aPGTLvEEAALRRsi~la~~~g~~~  202 (421)
T PRK12798        125 SGRGREARKLLAGVAPEYLPAELGAYLALVQGNLMVATDPATALKLLDQARLL--APGTLVEEAALRRSLFIAAQLGDAD  202 (421)
T ss_pred             cCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHHhcccCHHHHHHHHHHHHHh--CCchHHHHHHHHHhhHHHHhcCcHH
Confidence            58888888888777642    334555565543 3466888899988887663  443    234445555667888888


Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHH-HHHHHHhcC---CHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHH
Q 044352          403 KGLEIFRSMKERYGVKISKEHYAC-VVDMLCRSG---RMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEE  478 (544)
Q Consensus       403 ~a~~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  478 (544)
                      ++..+-.+...+|...|=...|.. +...+.+.+   ..+.-..++..|........|..+...-...|+.+-|...-++
T Consensus       203 rf~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~d~~~~~~l~~~ls~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~  282 (421)
T PRK12798        203 KFEALARNYLRRFRHSPYASQFAQRFVDLVVRLDDEIRDARLVEILSFMDPERQRELYLRIARAALIDGKTELARFASER  282 (421)
T ss_pred             HHHHHHHHHHHHhccCchHHHHHHHHHHHHHhccccccHHHHHHHHHhcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            888888887777666555444333 333333333   3344455556665333456777788888888999999999999


Q ss_pred             HHHcCCCCchhHHHHHHH-----HHhcCChHHHHHHHHHHHhc
Q 044352          479 FFEMGLRKPDGFVMLSNI-----CAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       479 ~~~~~p~~~~~~~~l~~~-----~~~~g~~~~A~~~~~~~~~~  516 (544)
                      +..+... ...-...+..     -.-..+.++|.+.+..+-..
T Consensus       283 A~~L~~~-~~~~~~ra~LY~aaa~v~s~~~~~al~~L~~I~~~  324 (421)
T PRK12798        283 ALKLADP-DSADAARARLYRGAALVASDDAESALEELSQIDRD  324 (421)
T ss_pred             HHHhccC-CCcchHHHHHHHHHHccCcccHHHHHHHHhcCChh
Confidence            8887632 2222222222     33345667777666665443

>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=90.89  E-value=3.2  Score=34.36  Aligned_cols=62  Identities=15%  Similarity=0.080  Sum_probs=36.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcccccC--HHHHHHHHHHhhCCCChHHHHHHHHHHHH
Q 044352           80 MLNWMVMASAFTGNFQEAIGYFSLMREFIYRCN--KFTFSIVLKACVGLLDIKKGKQVHAVATQ  141 (544)
Q Consensus        80 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  141 (544)
                      .+..+...|.+.|+.+.|++.|.++.+....+.  ...+..+++.....+++..+.....++..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            455566666666666666666666665433332  23455556666666666666666555544

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.

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=90.80  E-value=11  Score=33.34  Aligned_cols=60  Identities=13%  Similarity=0.030  Sum_probs=53.2

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          456 AGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       456 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      +......|...|.+.+|.++-++++.++|-+...+-.+...|...|+--.|.+.|+++.+
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~  341 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAE  341 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHH
Confidence            344556788999999999999999999999999999999999999999999988888753

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.77  E-value=11  Score=32.99  Aligned_cols=157  Identities=11%  Similarity=0.094  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHc---CC--CCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHh----CCCCchh
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEE---GM--RANEVTLISVLSACSHGGLVEKGLEIFRSMKERY----GVKISKE  422 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~  422 (544)
                      +...++..+.+.|++++.++.|.+++..   .+  .-+....+.++.......+.+-..++++......    +-..--.
T Consensus        67 ALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFK  146 (440)
T KOG1464|consen   67 ALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFK  146 (440)
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeee
Confidence            3444555555566666655555555431   01  1123344555544444444444444433322211    1111112


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC--------------CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCC--CC
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP--------------MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGL--RK  486 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~--------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p--~~  486 (544)
                      +-..+...|...|.+..-.++++++.              ...-...|..-+..|...++..+-..+|++++.+..  ++
T Consensus       147 TNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPH  226 (440)
T KOG1464|consen  147 TNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPH  226 (440)
T ss_pred             ccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCc
Confidence            22345555555555555555555431              001112344444556666666666667776666542  23


Q ss_pred             chhHHH----HHHHHHhcCChHHHHH
Q 044352          487 PDGFVM----LSNICAADGEWHEAEN  508 (544)
Q Consensus       487 ~~~~~~----l~~~~~~~g~~~~A~~  508 (544)
                      |.+.-.    =+..+.+.|+|++|..
T Consensus       227 PlImGvIRECGGKMHlreg~fe~AhT  252 (440)
T KOG1464|consen  227 PLIMGVIRECGGKMHLREGEFEKAHT  252 (440)
T ss_pred             hHHHhHHHHcCCccccccchHHHHHh
Confidence            332221    1334556667766654

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.67  E-value=15  Score=34.54  Aligned_cols=54  Identities=6%  Similarity=-0.073  Sum_probs=30.2

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHH
Q 044352          255 MISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCR  312 (544)
Q Consensus       255 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  312 (544)
                      ...+.-+.|+++...+........  .++...+..+...  ..++++++....+....
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~   57 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQ   57 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHH
Confidence            356677888888855554443311  2233333333322  77788877777666544

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=90.61  E-value=2.9  Score=34.80  Aligned_cols=71  Identities=14%  Similarity=0.053  Sum_probs=52.3

Q ss_pred             CHHHHHHHHHhCCCC---CChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCC----CCchhHHHHHHHHHhcCChHHHH
Q 044352          436 RMVEAYDLLRQVPMY---VTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGL----RKPDGFVMLSNICAADGEWHEAE  507 (544)
Q Consensus       436 ~~~~A~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~A~  507 (544)
                      .-++|.+.|-++...   .++.....++ .|....|.++++.++-+++++.+    .||.++..|+.++.+.|+++.|-
T Consensus       121 ~d~~A~~~fL~~E~~~~l~t~elq~aLA-tyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  121 GDQEALRRFLQLEGTPELETAELQYALA-TYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             CcHHHHHHHHHHcCCCCCCCHHHHHHHH-HHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            345677766666422   2444555554 45557899999999999999763    36889999999999999999884

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.28  E-value=2.5  Score=30.19  Aligned_cols=63  Identities=14%  Similarity=0.216  Sum_probs=48.4

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 044352          365 MVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVD  429 (544)
Q Consensus       365 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  429 (544)
                      +.-++.+-++.+....+.|++.+..+.+.+|.+.+++..|.++++.++.+.+.  +...|..++.
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHH
Confidence            34466777777777788999999999999999999999999999988765332  4445655543

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.

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=90.26  E-value=14  Score=33.63  Aligned_cols=77  Identities=13%  Similarity=-0.027  Sum_probs=45.8

Q ss_pred             HHHHHHHhCCCCCChhHHHHHHHHHhh----cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcC-------------
Q 044352          439 EAYDLLRQVPMYVTNSMAGAFRNGCNI----HGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG-------------  501 (544)
Q Consensus       439 ~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-------------  501 (544)
                      .|...+.++...-+......+...|..    ..+.++|..+|+++-+.+.  ......++ .+...|             
T Consensus       173 ~A~~~~~~aa~~~~~~a~~~lg~~y~~G~Gv~~d~~~A~~wy~~Aa~~g~--~~a~~~~~-~~~~~g~g~~~~~~~~~~~  249 (292)
T COG0790         173 KALYLYRKAAELGNPDAQLLLGRMYEKGLGVPRDLKKAFRWYKKAAEQGD--GAACYNLG-LMYLNGEGVKKAAFLTAAK  249 (292)
T ss_pred             hHHHHHHHHHHhcCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCC--HHHHHHHH-HHHhcCCCchhhhhccccc
Confidence            455666555433345555555544432    3477788888888877776  55555565 555444             


Q ss_pred             --ChHHHHHHHHHHHhcCC
Q 044352          502 --EWHEAENLRKIMKEKNV  518 (544)
Q Consensus       502 --~~~~A~~~~~~~~~~~~  518 (544)
                        +...|...+......+.
T Consensus       250 ~~~~~~a~~~~~~~~~~~~  268 (292)
T COG0790         250 EEDKKQALEWLQKACELGF  268 (292)
T ss_pred             CCCHHHHHHHHHHHHHcCC
Confidence              66667777766665554

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=90.14  E-value=5.5  Score=28.71  Aligned_cols=97  Identities=10%  Similarity=-0.078  Sum_probs=66.0

Q ss_pred             HHHHHhhccchhhhhhHHhHHHhhcc-cchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHH
Q 044352           18 CLLGKCMKSKALRQGKQVHALLCTND-LNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQE   96 (544)
Q Consensus        18 ~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   96 (544)
                      .++.+-.-....++|..+.+.+...+ .... +....+..+...|+|++|..+.+....||...|-.+..  .+.|--+.
T Consensus        10 E~AL~gTG~HcHqEA~tIAdwL~~~~~~~E~-v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~   86 (115)
T TIGR02508        10 EIALIGTGHHCHQEANTIADWLHLKGESEEA-VQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSA   86 (115)
T ss_pred             HHHHHHccchHHHHHHHHHHHHhcCCchHHH-HHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHH
Confidence            33333344457788888887777663 3334 55555667788899999999999998888888877765  45676677


Q ss_pred             HHHHHHHHHhcccccCHHHHHH
Q 044352           97 AIGYFSLMREFIYRCNKFTFSI  118 (544)
Q Consensus        97 A~~~~~~~~~~~~~p~~~~~~~  118 (544)
                      +..-+.+|...| .|....|..
T Consensus        87 l~~rl~rla~sg-~p~lq~Faa  107 (115)
T TIGR02508        87 LESRLNRLAASG-DPRLQTFVA  107 (115)
T ss_pred             HHHHHHHHHhCC-CHHHHHHHH
Confidence            777777777654 344444443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.05  E-value=0.24  Score=44.20  Aligned_cols=119  Identities=12%  Similarity=0.012  Sum_probs=64.8

Q ss_pred             HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCChh-HHHHHHHHHhhcCChHHH
Q 044352          395 CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTNS-MAGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~-~~~~l~~~~~~~g~~~~A  472 (544)
                      ....|.++.|++.|...++  --++....|..-..++.+.++...|++-+.... +.||.. .|..-..+-+..|++++|
T Consensus       124 Aln~G~~~~ai~~~t~ai~--lnp~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~a  201 (377)
T KOG1308|consen  124 ALNDGEFDTAIELFTSAIE--LNPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEA  201 (377)
T ss_pred             HhcCcchhhhhcccccccc--cCCchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHH
Confidence            3455667777777776665  234455555555666666666666666665543 333322 233333344556677777


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          473 VTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      ...++.+.+++-+ ..+-..+-.+.-+.+..++-...+++..+.
T Consensus       202 a~dl~~a~kld~d-E~~~a~lKeV~p~a~ki~e~~~k~er~~~e  244 (377)
T KOG1308|consen  202 AHDLALACKLDYD-EANSATLKEVFPNAGKIEEHRRKYERAREE  244 (377)
T ss_pred             HHHHHHHHhcccc-HHHHHHHHHhccchhhhhhchhHHHHHHHH
Confidence            7777777666642 233333444444555555555555554443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.99  E-value=4.8  Score=39.35  Aligned_cols=98  Identities=17%  Similarity=0.191  Sum_probs=46.2

Q ss_pred             hCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHH
Q 044352          160 KCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSR  239 (544)
Q Consensus       160 ~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  239 (544)
                      +.|+++.|.++..+.  .+..-|..|.++....+++..|.+.|.....         |..|+-.+...|+-+....+-..
T Consensus       649 ~lgrl~iA~~la~e~--~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~  717 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEA--NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASL  717 (794)
T ss_pred             hcCcHHHHHHHHHhh--cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHH
Confidence            445555555544332  2334455555555555555555555554432         23344444555555444444444


Q ss_pred             hhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHH
Q 044352          240 MTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKG  274 (544)
Q Consensus       240 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  274 (544)
                      ..+.| ..|     ....+|...|+++++.+++..
T Consensus       718 ~~~~g-~~N-----~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  718 AKKQG-KNN-----LAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHhhc-ccc-----hHHHHHHHcCCHHHHHHHHHh
Confidence            44443 211     122344455566655555543

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=89.96  E-value=2.8  Score=30.28  Aligned_cols=60  Identities=15%  Similarity=0.272  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 044352          368 SSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVD  429 (544)
Q Consensus       368 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  429 (544)
                      +..+-+..+....+.|++.+..+.+.+|.+.+++..|.++++.++.+.+.  ....|..++.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~--~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGN--KKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--hHHHHHHHHH
Confidence            56666777777778899999999999999999999999999999886443  3336666654

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 ....

>KOG2300 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.68  E-value=20  Score=34.40  Aligned_cols=396  Identities=10%  Similarity=-0.003  Sum_probs=209.3

Q ss_pred             hHHHHHHHhhccc--hhhhhhHHhHHHhhc-ccchhh--HHHHHHHHhh-cCCChHHHHHHhccCC----------CCCc
Q 044352           15 YLDCLLGKCMKSK--ALRQGKQVHALLCTN-DLNIFS--LKSKLVGVYA-GCGDVNSARLVFDKIP----------NPNV   78 (544)
Q Consensus        15 ~~~~l~~~~~~~g--~~~~A~~~~~~~~~~-~~~~~~--~~~~l~~~~~-~~g~~~~A~~~~~~~~----------~~~~   78 (544)
                      ++..++..+..+|  ++..+++-++.+... +|+...  ....++..+. ...+++.|...+++..          ..--
T Consensus         9 aLlGlAe~~rt~~PPkIkk~IkClqA~~~~~is~~veart~LqLg~lL~~yT~N~elAksHLekA~~i~~~ip~fydvKf   88 (629)
T KOG2300|consen    9 ALLGLAEHFRTSGPPKIKKCIKCLQAIFQFQISFLVEARTHLQLGALLLRYTKNVELAKSHLEKAWLISKSIPSFYDVKF   88 (629)
T ss_pred             HHHHHHHHHhhcCChhHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHcccccHHhhhh
Confidence            4555666677777  788888888888877 444321  4445555544 4578888888777643          1122


Q ss_pred             hhHHHHHHHHHhcC-CHHHHHHHHHHHHhcccc-c--CHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHH
Q 044352           79 FMLNWMVMASAFTG-NFQEAIGYFSLMREFIYR-C--NKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNAL  154 (544)
Q Consensus        79 ~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~-p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  154 (544)
                      .++..+.+.+.... .+..+..++++.++..-. |  .-.....+++.+.-..++..|.+++.--.... .+-...|..+
T Consensus        89 ~a~SlLa~lh~~~~~s~~~~KalLrkaielsq~~p~wsckllfQLaql~~idkD~~sA~elLavga~sA-d~~~~~ylr~  167 (629)
T KOG2300|consen   89 QAASLLAHLHHQLAQSFPPAKALLRKAIELSQSVPYWSCKLLFQLAQLHIIDKDFPSALELLAVGAESA-DHICFPYLRM  167 (629)
T ss_pred             HHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCchhhHHHHHHHHHHHhhhccchhHHHHHhcccccc-chhhhHHHHH
Confidence            45667777777665 788888888888764211 1  11223445566677788888888754322221 1222222222


Q ss_pred             HH------HHHhCCCHHHHHHHHhhc---cC---CChh------hH--HHHHHHHhccCChhHHHHHHHHHHHc---CC-
Q 044352          155 ID------MYSKCGLLCSARRVFHGM---FE---RDVV------SW--TSMISGYCNVSKVDEAVVLFERMKLE---GL-  210 (544)
Q Consensus       155 ~~------~~~~~~~~~~A~~~~~~~---~~---~~~~------~~--~~l~~~~~~~~~~~~a~~~~~~~~~~---~~-  210 (544)
                      +.      ......+..++..+....   .+   +|..      .|  ..-+..|...|+...+...++++...   +. 
T Consensus       168 ~ftls~~~ll~me~d~~dV~~ll~~~~qi~~n~~sdk~~~E~LkvFyl~lql~yy~~~gq~rt~k~~lkQLQ~siqtist  247 (629)
T KOG2300|consen  168 LFTLSMLMLLIMERDDYDVEKLLQRCGQIWQNISSDKTQKEMLKVFYLVLQLSYYLLPGQVRTVKPALKQLQDSIQTIST  247 (629)
T ss_pred             HHHHHHHHHHHhCccHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHHHHHHHhcccchhhhHHHHHHHHHHHhccCC
Confidence            21      122233444454444433   22   2221      12  22234456678888777777776432   11 


Q ss_pred             -----------CCCHhhHHHHHH----HH---------HhcCChHHHHHHHHHh-------hhCC-CCCCHh-----HHH
Q 044352          211 -----------EPNQFTYNAIIA----SY---------ARRGDSNAAFAFFSRM-------TAEG-FVPDLV-----TWN  253 (544)
Q Consensus       211 -----------~~~~~~~~~l~~----~~---------~~~~~~~~a~~~~~~~-------~~~~-~~~~~~-----~~~  253 (544)
                                 .|....+..+..    ++         .-.|-+++|.++-+++       ++.. ..|-..     +..
T Consensus       248 ~~~~h~e~ilgsps~~l~~wlpkeqicaLV~l~tv~hsm~~gy~~~~~K~tDe~i~q~eklkq~d~~srilsm~km~~LE  327 (629)
T KOG2300|consen  248 SSRGHDEKILGSPSPILFEWLPKEQICALVYLVTVIHSMPAGYFKKAQKYTDEAIKQTEKLKQADLMSRILSMFKMILLE  327 (629)
T ss_pred             CCCCccccccCCCChHHHhhccHhhhHhhhhhhHHhhhhhhHHHHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHH
Confidence                       122222211111    00         1123344454444443       3221 111111     122


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHcC-CCCCH-------HHHHHHHH-HhhccCchHHHHHHHHHHHHcCCCCCHHHH--
Q 044352          254 AMISGFAQSKRENEALKLFKGMLVSG-IKPNN-------VTVTGVLQ-AGGLTGSIQIGREIHALVCRMGLHIDVFTG--  322 (544)
Q Consensus       254 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-------~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--  322 (544)
                      .++.+-.-.|++.+|++-+.+|.+.- -.|.+       .....++. -++..+.++.|..-|....+.--..+..++  
T Consensus       328 ~iv~c~lv~~~~~~al~~i~dm~~w~~r~p~~~Llr~~~~~ih~LlGlys~sv~~~enAe~hf~~a~k~t~~~dl~a~~n  407 (629)
T KOG2300|consen  328 HIVMCRLVRGDYVEALEEIVDMKNWCTRFPTPLLLRAHEAQIHMLLGLYSHSVNCYENAEFHFIEATKLTESIDLQAFCN  407 (629)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHhCCchHHHHHhHHHHHHHHhhHhhhcchHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            23333445899999999999987632 12331       11222333 345667788888888777665434444333  


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCCccHHHHH----------HHHHHHHhcCChHHHHHHHHHHHHcCCCC-----CHHH
Q 044352          323 SALIDMYSKCGSLKDARTLFEITRIKNVASWN----------AMIGCYGKHGMVDSSIELFERMLEEGMRA-----NEVT  387 (544)
Q Consensus       323 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----------~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-----~~~~  387 (544)
                      ..+...|.+.|+.+.-.++++.+..+|..++.          .-.-.....+++.+|...+.+-++-.-.-     ..-.
T Consensus       408 lnlAi~YL~~~~~ed~y~~ld~i~p~nt~s~ssq~l~a~~~~v~glfaf~qn~lnEaK~~l~e~Lkmanaed~~rL~a~~  487 (629)
T KOG2300|consen  408 LNLAISYLRIGDAEDLYKALDLIGPLNTNSLSSQRLEASILYVYGLFAFKQNDLNEAKRFLRETLKMANAEDLNRLTACS  487 (629)
T ss_pred             HhHHHHHHHhccHHHHHHHHHhcCCCCCCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhcchhhHHHHHHHH
Confidence            34566788888888888888887765432211          11112235778888888887766531111     1112


Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHH
Q 044352          388 LISVLSACSHGGLVEKGLEIFRSM  411 (544)
Q Consensus       388 ~~~l~~~~~~~~~~~~a~~~~~~~  411 (544)
                      +..+...+...|+..++.+...-.
T Consensus       488 LvLLs~v~lslgn~~es~nmvrpa  511 (629)
T KOG2300|consen  488 LVLLSHVFLSLGNTVESRNMVRPA  511 (629)
T ss_pred             HHHHHHHHHHhcchHHHHhccchH
Confidence            223333445566666666555433

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.57  E-value=7.9  Score=37.98  Aligned_cols=149  Identities=14%  Similarity=0.046  Sum_probs=82.1

Q ss_pred             CCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHh
Q 044352          161 CGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRM  240 (544)
Q Consensus       161 ~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  240 (544)
                      .|+++.|..++..++++.   -+.++..+...|-.++|+++         .+|+..   -.....+.|+++.|.++..+.
T Consensus       599 rrd~~~a~~vLp~I~k~~---rt~va~Fle~~g~~e~AL~~---------s~D~d~---rFelal~lgrl~iA~~la~e~  663 (794)
T KOG0276|consen  599 RRDLEVADGVLPTIPKEI---RTKVAHFLESQGMKEQALEL---------STDPDQ---RFELALKLGRLDIAFDLAVEA  663 (794)
T ss_pred             hccccccccccccCchhh---hhhHHhHhhhccchHhhhhc---------CCChhh---hhhhhhhcCcHHHHHHHHHhh
Confidence            466666666555554322   23334444455555555543         233221   122334567777777765553


Q ss_pred             hhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHH
Q 044352          241 TAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVF  320 (544)
Q Consensus       241 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  320 (544)
                            .+..-|..|.++....+++..|.+.|.....         +..|+-.+...|+-+....+-....+.|..    
T Consensus       664 ------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~~----  724 (794)
T KOG0276|consen  664 ------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGKN----  724 (794)
T ss_pred             ------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhccc----
Confidence                  3556677777777788888877777766542         334455555566665555555555554421    


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhc
Q 044352          321 TGSALIDMYSKCGSLKDARTLFEIT  345 (544)
Q Consensus       321 ~~~~l~~~~~~~~~~~~A~~~~~~~  345 (544)
                        +....+|...|+++++.+++..-
T Consensus       725 --N~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  725 --NLAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             --chHHHHHHHcCCHHHHHHHHHhc
Confidence              22223455567777776666543

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=89.56  E-value=25  Score=35.51  Aligned_cols=276  Identities=15%  Similarity=0.094  Sum_probs=164.6

Q ss_pred             hhHHHHHHHHHHHcCCCCCHhhHHHHHH--H-HHhcCChHHHHHHHHHhhh-------CCCCCCHhHHHHHHHHHHcCC-
Q 044352          195 VDEAVVLFERMKLEGLEPNQFTYNAIIA--S-YARRGDSNAAFAFFSRMTA-------EGFVPDLVTWNAMISGFAQSK-  263 (544)
Q Consensus       195 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~-  263 (544)
                      ...+.++++.....|. .........+.  + +....|.+.|+.+|+.+.+       .|   .+.....+..+|.+.. 
T Consensus       228 ~~~a~~~~~~~a~~g~-~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGH-SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhcc-hHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            4567888888776652 22222222222  2 3356789999999998876       44   3335566777777643 


Q ss_pred             ----CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhc-cCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCC
Q 044352          264 ----RENEALKLFKGMLVSGIKPNNVTVTGVLQAGGL-TGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSK----CGS  334 (544)
Q Consensus       264 ----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~  334 (544)
                          +...|+.+|......| .|+.......+..... ..+...|.++|....+.|..   ..+..+..+|..    ..+
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~---~A~~~la~~y~~G~gv~r~  379 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI---LAIYRLALCYELGLGVERN  379 (552)
T ss_pred             CccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCcCCC
Confidence                6678999999988887 5665555444444443 35678999999999998833   333334433332    347


Q ss_pred             HHHHHHHHHhcCCccH-HHHHHHHHHHHh-cCChHHHHHHHHHHHHcCCCCCHHHHHHHH-HHH---hc----CCchHHH
Q 044352          335 LKDARTLFEITRIKNV-ASWNAMIGCYGK-HGMVDSSIELFERMLEEGMRANEVTLISVL-SAC---SH----GGLVEKG  404 (544)
Q Consensus       335 ~~~A~~~~~~~~~~~~-~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~-~~~---~~----~~~~~~a  404 (544)
                      ...|..++.+.-..+. .+...+...+.. .++++.+...+..+.+.|..- ..+-...+ ...   ..    ..+...+
T Consensus       380 ~~~A~~~~k~aA~~g~~~A~~~~~~~~~~g~~~~~~~~~~~~~~a~~g~~~-~q~~a~~l~~~~~~~~~~~~~~~~~~~~  458 (552)
T KOG1550|consen  380 LELAFAYYKKAAEKGNPSAAYLLGAFYEYGVGRYDTALALYLYLAELGYEV-AQSNAAYLLDQSEEDLFSRGVISTLERA  458 (552)
T ss_pred             HHHHHHHHHHHHHccChhhHHHHHHHHHHccccccHHHHHHHHHHHhhhhH-HhhHHHHHHHhccccccccccccchhHH
Confidence            8889999988776653 323332222221 277888887777777765322 22111111 111   11    2245566


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHHhc----CCHHHHHHHHHhCCCCCChhHHHHHHHHHh----hcCChHHHHHHH
Q 044352          405 LEIFRSMKERYGVKISKEHYACVVDMLCRS----GRMVEAYDLLRQVPMYVTNSMAGAFRNGCN----IHGRRDLAVTMG  476 (544)
Q Consensus       405 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~----~~g~~~~A~~~~  476 (544)
                      ...+.+...    .-+......+...|...    .++..|...+.....+. .....++...+-    ... ...|.+++
T Consensus       459 ~~~~~~a~~----~g~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~-~~~~~nlg~~~e~g~g~~~-~~~a~~~~  532 (552)
T KOG1550|consen  459 FSLYSRAAA----QGNADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG-AQALFNLGYMHEHGEGIKV-LHLAKRYY  532 (552)
T ss_pred             HHHHHHHHh----ccCHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh-hHHHhhhhhHHhcCcCcch-hHHHHHHH
Confidence            666666644    33555666666665443    35788888888776444 444444443332    233 78999999


Q ss_pred             HHHHHcCCC
Q 044352          477 EEFFEMGLR  485 (544)
Q Consensus       477 ~~~~~~~p~  485 (544)
                      +++.+.+..
T Consensus       533 ~~~~~~~~~  541 (552)
T KOG1550|consen  533 DQASEEDSR  541 (552)
T ss_pred             HHHHhcCch
Confidence            999887754

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=89.16  E-value=17  Score=33.04  Aligned_cols=131  Identities=15%  Similarity=0.204  Sum_probs=74.1

Q ss_pred             hhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh--cC----ChHHHHHHHHHhhhCCC---CCCHhHHHHHHHHHHcCCCH
Q 044352          195 VDEAVVLFERMKLEGLEPNQFTYNAIIASYAR--RG----DSNAAFAFFSRMTAEGF---VPDLVTWNAMISGFAQSKRE  265 (544)
Q Consensus       195 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~  265 (544)
                      +++...+++.|.+.|...+..+|-+.......  ..    ...+|..+|+.|++...   .++...+..++..  ..++.
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            34556777888888888877766553333332  22    34568888888887621   1233334444332  33333


Q ss_pred             ----HHHHHHHHHHHHcCCCCCH--HHHHHHHHHhhccCc--hHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044352          266 ----NEALKLFKGMLVSGIKPNN--VTVTGVLQAGGLTGS--IQIGREIHALVCRMGLHIDVFTGSALID  327 (544)
Q Consensus       266 ----~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~  327 (544)
                          +.+..+|+.+.+.|...+.  .....++..+....+  ...+..+++.+.+.|+++....|..++-
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHH
Confidence                4566777777776755533  233334433333222  3466777777888877766666555443

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=89.02  E-value=11  Score=30.63  Aligned_cols=97  Identities=13%  Similarity=0.164  Sum_probs=45.1

Q ss_pred             HHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccC--ChhHHHHHHHHHHHcCCCCC
Q 044352          136 HAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVS--KVDEAVVLFERMKLEGLEPN  213 (544)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~  213 (544)
                      +..+.+.+++++...+..++..+.+.|++.....++.--.-+|.......+-.+....  -..-+++++.++.       
T Consensus        17 irSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~-------   89 (167)
T PF07035_consen   17 IRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG-------   89 (167)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh-------
Confidence            3444455566666666666666666666665555554433333222222221111110  0222333333332       


Q ss_pred             HhhHHHHHHHHHhcCChHHHHHHHHHh
Q 044352          214 QFTYNAIIASYARRGDSNAAFAFFSRM  240 (544)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~  240 (544)
                       ..+..++..+...|++-+|+++.+..
T Consensus        90 -~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   90 -TAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             -hhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence             12344555566666666666666554

>PRK09687 putative lyase; Provisional

Probab=88.84  E-value=18  Score=32.73  Aligned_cols=28  Identities=14%  Similarity=0.122  Sum_probs=12.5

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 044352          248 DLVTWNAMISGFAQSKRENEALKLFKGML  276 (544)
Q Consensus       248 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  276 (544)
                      +..+-...+.++.+.++ ..++..+-.++
T Consensus       141 ~~~VR~~a~~aLg~~~~-~~ai~~L~~~L  168 (280)
T PRK09687        141 STNVRFAVAFALSVIND-EAAIPLLINLL  168 (280)
T ss_pred             CHHHHHHHHHHHhccCC-HHHHHHHHHHh
Confidence            33444444455544444 33444444444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=88.84  E-value=18  Score=32.90  Aligned_cols=49  Identities=10%  Similarity=0.173  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHhcccccCHHHHHHHHHHhhC--CC----ChHHHHHHHHHHHHcC
Q 044352           95 QEAIGYFSLMREFIYRCNKFTFSIVLKACVG--LL----DIKKGKQVHAVATQMG  143 (544)
Q Consensus        95 ~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~  143 (544)
                      .+.+.+++.|.+.|+.-+..+|.........  ..    ...++..+++.|.+..
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H  133 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKH  133 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhC
Confidence            4556778888888888777776654433322  22    2445777777777764

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.43  E-value=1.1  Score=26.86  Aligned_cols=27  Identities=19%  Similarity=0.199  Sum_probs=20.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          491 VMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       491 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ..|+.+|...|+.+.|++++++++..+
T Consensus         3 LdLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         3 LDLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             hHHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            357778888888888888888877544

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PF04910 Tcf25: Transcriptional repressor TCF25; InterPro: IPR006994 This entry appears to represent a novel family of basic helix-loop-helix (bHLH) proteins that control differentiation and development of a variety of organs [, ]

Probab=88.26  E-value=23  Score=33.39  Aligned_cols=58  Identities=10%  Similarity=0.136  Sum_probs=37.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh-cCCchHHHHHHHHHHHH
Q 044352          356 MIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACS-HGGLVEKGLEIFRSMKE  413 (544)
Q Consensus       356 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~  413 (544)
                      .+..+.+.|-+..|+++.+-+......-|+......|..|+ +.++++.-+++.+....
T Consensus       109 ~i~~L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~ALrs~~y~~Li~~~~~~~~  167 (360)
T PF04910_consen  109 YIQSLGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYALRSRQYQWLIDFSESPLA  167 (360)
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHhcCCHHHHHHHHHhHhh
Confidence            35566777888888888877777543335555555555543 66777777777776543

Human Nulp1 (Q2MK75 from SWISSPROT) is a basic helix-loop-helix protein expressed broadly during early embryonic organogenesis. Over expression of human Nulp1 in COS-7 cells inhibits the transcriptional activity of serum response factor (SRF), suggesting that Nulp1 may act as a novel bHLH transcriptional repressor in the SRF signalling pathway to mediate cellular functions [].

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=88.24  E-value=33  Score=35.18  Aligned_cols=46  Identities=17%  Similarity=0.175  Sum_probs=32.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCC
Q 044352           80 MLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGL  126 (544)
Q Consensus        80 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~  126 (544)
                      ..-.+|-.+.|.|++++|.++....... .......+...+..+...
T Consensus       113 p~Wa~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  113 PIWALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             EHHHHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTT
T ss_pred             ccHHHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhC
Confidence            3445677788999999999999665543 455566778888888665

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=88.07  E-value=3.1  Score=35.61  Aligned_cols=65  Identities=12%  Similarity=0.066  Sum_probs=42.2

Q ss_pred             HHHHHHHHHhhcCChH-------HHHHHHHHHHHcC--CCC----chhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 044352          455 MAGAFRNGCNIHGRRD-------LAVTMGEEFFEMG--LRK----PDGFVMLSNICAADGEWHEAENLRKIMKEKNVQ  519 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~-------~A~~~~~~~~~~~--p~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  519 (544)
                      .+..+++.|...|+.+       .|...|+++.+..  |..    ......+|.+..+.|++++|.+.|.+++..+-.
T Consensus       120 l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~  197 (214)
T PF09986_consen  120 LCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKKA  197 (214)
T ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCC
Confidence            3445555666666643       4555555555543  222    345666888888999999999999998876543

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=88.06  E-value=1.3  Score=24.01  Aligned_cols=30  Identities=13%  Similarity=0.092  Sum_probs=25.1

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 044352          467 GRRDLAVTMGEEFFEMGLRKPDGFVMLSNI  496 (544)
Q Consensus       467 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  496 (544)
                      |+.+.|..+|++++...|.++..|..++..
T Consensus         1 ~~~~~~r~i~e~~l~~~~~~~~~W~~y~~~   30 (33)
T smart00386        1 GDIERARKIYERALEKFPKSVELWLKYAEF   30 (33)
T ss_pred             CcHHHHHHHHHHHHHHCCCChHHHHHHHHH
Confidence            567889999999999999888888877654

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

>smart00028 TPR Tetratricopeptide repeats

Probab=87.33  E-value=1.2  Score=23.62  Aligned_cols=29  Identities=21%  Similarity=0.198  Sum_probs=25.8

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          488 DGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       488 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      .++..++.++...|++++|...+++.++.
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~   30 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALEL   30 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            56788999999999999999999988764

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.22  E-value=38  Score=34.71  Aligned_cols=22  Identities=14%  Similarity=0.316  Sum_probs=12.1

Q ss_pred             HHHHHhccCChhHHHHHHHHHH
Q 044352          185 MISGYCNVSKVDEAVVLFERMK  206 (544)
Q Consensus       185 l~~~~~~~~~~~~a~~~~~~~~  206 (544)
                      |+..|...+++..|+.++-..+
T Consensus       511 La~LYl~d~~Y~~Al~~ylklk  532 (846)
T KOG2066|consen  511 LAHLYLYDNKYEKALPIYLKLQ  532 (846)
T ss_pred             HHHHHHHccChHHHHHHHHhcc
Confidence            5555555566666655555443

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=87.11  E-value=1.6  Score=29.82  Aligned_cols=46  Identities=15%  Similarity=0.120  Sum_probs=36.8

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCchhHHH---HHHHHHhcCChHHHHHHH
Q 044352          465 IHGRRDLAVTMGEEFFEMGLRKPDGFVM---LSNICAADGEWHEAENLR  510 (544)
Q Consensus       465 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~---l~~~~~~~g~~~~A~~~~  510 (544)
                      ...+.++|+..|+.+++..++.+.-|..   ++.+|+..|++.+++.+-
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6778999999999999988776665555   456788899999988864

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=87.02  E-value=23  Score=32.01  Aligned_cols=15  Identities=20%  Similarity=0.235  Sum_probs=10.5

Q ss_pred             HHhcCCHHHHHHHHH
Q 044352          329 YSKCGSLKDARTLFE  343 (544)
Q Consensus       329 ~~~~~~~~~A~~~~~  343 (544)
                      +.+.++++.|.++|+
T Consensus       256 ~~~~k~y~~A~~w~~  270 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYE  270 (278)
T ss_pred             HHhhcCHHHHHHHHH
Confidence            455677777777776

It is also involved in sporulation [].

>KOG4279 consensus Serine/threonine protein kinase [Signal transduction mechanisms]

Probab=86.97  E-value=38  Score=34.51  Aligned_cols=215  Identities=13%  Similarity=0.151  Sum_probs=111.9

Q ss_pred             HHHHHHHHhhhCCCCCC---HhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHH----------HHHHHHHHhhccC
Q 044352          232 AAFAFFSRMTAEGFVPD---LVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNV----------TVTGVLQAGGLTG  298 (544)
Q Consensus       232 ~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----------~~~~l~~~~~~~~  298 (544)
                      +-..++.+|..+--.|+   ..+...++-.|....+++..+++.+.+...   ||..          .|...+.--.+.|
T Consensus       181 ~l~~~L~~mR~RlDnp~VL~~d~V~nlmlSyRDvQdY~amirLVe~Lk~i---P~t~~vve~~nv~f~YaFALNRRNr~G  257 (1226)
T KOG4279|consen  181 QLNDYLDKMRTRLDNPDVLHPDTVSNLMLSYRDVQDYDAMIRLVEDLKRI---PDTLKVVETHNVRFHYAFALNRRNRPG  257 (1226)
T ss_pred             HHHHHHHHHHhhcCCccccCHHHHHHHHhhhccccchHHHHHHHHHHHhC---cchhhhhccCceEEEeeehhcccCCCc
Confidence            33455566655422332   334455666677777788777777777642   3211          1222333333456


Q ss_pred             chHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 044352          299 SIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLE  378 (544)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  378 (544)
                      |.+.|....-.+.+..-+..+..|       |-+|+      +++.|.         +...|...+..+.|.+.|++.-+
T Consensus       258 DRakAL~~~l~lve~eg~vapDm~-------Cl~GR------IYKDmF---------~~S~ytDa~s~~~a~~WyrkaFe  315 (1226)
T KOG4279|consen  258 DRAKALNTVLPLVEKEGPVAPDMY-------CLCGR------IYKDMF---------IASNYTDAESLNHAIEWYRKAFE  315 (1226)
T ss_pred             cHHHHHHHHHHHHHhcCCCCCcee-------eeech------hhhhhh---------hccCCcchhhHHHHHHHHHHHhc
Confidence            666666665555544322222222       22222      111111         11123445566778888888776


Q ss_pred             cCCCCCHHHHHHHHHHHhcCCc-hHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHH
Q 044352          379 EGMRANEVTLISVLSACSHGGL-VEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAG  457 (544)
Q Consensus       379 ~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  457 (544)
                        +.|+...=..+...+...|. ++...++ +.            +-..|...+.+.|..+.-.++|+-.-         
T Consensus       316 --veP~~~sGIN~atLL~aaG~~Fens~El-q~------------IgmkLn~LlgrKG~leklq~YWdV~~---------  371 (1226)
T KOG4279|consen  316 --VEPLEYSGINLATLLRAAGEHFENSLEL-QQ------------IGMKLNSLLGRKGALEKLQEYWDVAT---------  371 (1226)
T ss_pred             --cCchhhccccHHHHHHHhhhhccchHHH-HH------------HHHHHHHHhhccchHHHHHHHHhHHH---------
Confidence              46665432222222222332 2222211 11            11123445678888888877776431         


Q ss_pred             HHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 044352          458 AFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI  496 (544)
Q Consensus       458 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  496 (544)
                       .+.+-.-.+++.+|+...+.+.++.|+....-..+..+
T Consensus       372 -y~~asVLAnd~~kaiqAae~mfKLk~P~WYLkS~meni  409 (1226)
T KOG4279|consen  372 -YFEASVLANDYQKAIQAAEMMFKLKPPVWYLKSTMENI  409 (1226)
T ss_pred             -hhhhhhhccCHHHHHHHHHHHhccCCceehHHHHHHHH
Confidence             22344457789999999999999998766655555444

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=86.92  E-value=31  Score=33.42  Aligned_cols=176  Identities=14%  Similarity=0.115  Sum_probs=121.7

Q ss_pred             CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHH
Q 044352           75 NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNAL  154 (544)
Q Consensus        75 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  154 (544)
                      +.|.....+++..+..+....-...+..+|...  .-+...|..+++.|... ..++-..+|+++.+..+ .|...-..|
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~--~e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReL  138 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEY--GESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGREL  138 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHh--cchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHH
Confidence            445667788889999888889999999999984  45777889999999887 66788899999888753 445555566


Q ss_pred             HHHHHhCCCHHHHHHHHhhccC------CC---hhhHHHHHHHHhccCChhHHHHHHHHHHHc-CCCCCHhhHHHHHHHH
Q 044352          155 IDMYSKCGLLCSARRVFHGMFE------RD---VVSWTSMISGYCNVSKVDEAVVLFERMKLE-GLEPNQFTYNAIIASY  224 (544)
Q Consensus       155 ~~~~~~~~~~~~A~~~~~~~~~------~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~  224 (544)
                      +..|-+ ++...+...|.++..      .+   ...|.-+...  -..+.+..+.+..++... |...-...+..+-.-|
T Consensus       139 a~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         139 ADKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            666655 888888888877632      11   1245544432  135566666666666533 4344455566666778


Q ss_pred             HhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHH
Q 044352          225 ARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISG  258 (544)
Q Consensus       225 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  258 (544)
                      ....++.+|++++..+.+.+ ..|...-..++.-
T Consensus       216 s~~eN~~eai~Ilk~il~~d-~k~~~ar~~~i~~  248 (711)
T COG1747         216 SENENWTEAIRILKHILEHD-EKDVWARKEIIEN  248 (711)
T ss_pred             ccccCHHHHHHHHHHHhhhc-chhhhHHHHHHHH
Confidence            88899999999999887665 4455544444443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=86.49  E-value=23  Score=31.51  Aligned_cols=58  Identities=12%  Similarity=0.124  Sum_probs=39.2

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHH
Q 044352          252 WNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALV  310 (544)
Q Consensus       252 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  310 (544)
                      ++.....|..+|.+.+|.++.+..+..+ +.+...+..+++.+...||--.+.+-++.+
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            3444566777777888877777777554 556666777777777777766666555554

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=86.28  E-value=43  Score=34.44  Aligned_cols=172  Identities=8%  Similarity=0.026  Sum_probs=83.9

Q ss_pred             hhHHhHHHhhc---ccc--hhhHHHHHHHHhh-cCCChHHHHHHhccCC----CCCch-----hHHHHHHHHHhcCCHHH
Q 044352           32 GKQVHALLCTN---DLN--IFSLKSKLVGVYA-GCGDVNSARLVFDKIP----NPNVF-----MLNWMVMASAFTGNFQE   96 (544)
Q Consensus        32 A~~~~~~~~~~---~~~--~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~----~~~~~-----~~~~l~~~~~~~~~~~~   96 (544)
                      |+.-++-+++.   +|.  .. ++..++..+. ...+++.|+..+++..    +++..     +-..++..+.+.+... 
T Consensus        40 ai~CL~~~~~~~~l~p~~ea~-~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-  117 (608)
T PF10345_consen   40 AIKCLEAVLKQFKLSPRQEAR-VRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-  117 (608)
T ss_pred             HHHHHHHHhccCCCCHHHHHH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-
Confidence            45555555533   222  23 5666777666 5677888888777654    11111     1223445555554444 


Q ss_pred             HHHHHHHHHhcccc----cCHHHHHHH-HHHhhCCCChHHHHHHHHHHHHcC---CCCChhHHHHHHHHHH--hCCCHHH
Q 044352           97 AIGYFSLMREFIYR----CNKFTFSIV-LKACVGLLDIKKGKQVHAVATQMG---FENDVSVGNALIDMYS--KCGLLCS  166 (544)
Q Consensus        97 A~~~~~~~~~~~~~----p~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~--~~~~~~~  166 (544)
                      |...+++.++.--.    +-...|..+ +..+...+++..|.+.++.+....   ..+...++..++.+..  +.+..++
T Consensus       118 a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d  197 (608)
T PF10345_consen  118 ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDD  197 (608)
T ss_pred             HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchh
Confidence            77777776553111    112222322 222223367777777777666542   1233333444444433  3444555


Q ss_pred             HHHHHhhccC-------------CChhhHHHHHHHH--hccCChhHHHHHHHHH
Q 044352          167 ARRVFHGMFE-------------RDVVSWTSMISGY--CNVSKVDEAVVLFERM  205 (544)
Q Consensus       167 A~~~~~~~~~-------------~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~  205 (544)
                      +.+.++.+..             +-..+|..+++.+  ...|+++.+...++++
T Consensus       198 ~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  198 VLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             HHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5555544411             1233455555443  3456655665555544

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=86.02  E-value=48  Score=34.67  Aligned_cols=85  Identities=11%  Similarity=-0.020  Sum_probs=45.8

Q ss_pred             hCCCChHHHHHHHHHHHHcCCCCChh-------HHHHHH-HHHHhCCCHHHHHHHHhhccC--------CChhhHHHHHH
Q 044352          124 VGLLDIKKGKQVHAVATQMGFENDVS-------VGNALI-DMYSKCGLLCSARRVFHGMFE--------RDVVSWTSMIS  187 (544)
Q Consensus       124 ~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~-~~~~~~~~~~~A~~~~~~~~~--------~~~~~~~~l~~  187 (544)
                      ....++.+|..++.++...=.+|+..       .++.+- .+....|+++.|.++.+....        .....+..+..
T Consensus       426 ~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~  505 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGE  505 (894)
T ss_pred             HHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhH
Confidence            35566777777776665542121111       122221 122345677777766655532        23445566666


Q ss_pred             HHhccCChhHHHHHHHHHHHc
Q 044352          188 GYCNVSKVDEAVVLFERMKLE  208 (544)
Q Consensus       188 ~~~~~~~~~~a~~~~~~~~~~  208 (544)
                      +..-.|++++|..+..+..+.
T Consensus       506 a~~~~G~~~~Al~~~~~a~~~  526 (894)
T COG2909         506 AAHIRGELTQALALMQQAEQM  526 (894)
T ss_pred             HHHHhchHHHHHHHHHHHHHH
Confidence            666677777777766655433

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=85.81  E-value=45  Score=34.23  Aligned_cols=85  Identities=12%  Similarity=0.032  Sum_probs=31.2

Q ss_pred             HHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHh---c
Q 044352          257 SGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMG-LHIDVFTGSALIDMYSK---C  332 (544)
Q Consensus       257 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~---~  332 (544)
                      ..+.-.|+++.|++++..  ..+...+...+...+.-+.-.+-.+...   ..+.... -.+..--+..++..|.+   .
T Consensus       266 ~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~~  340 (613)
T PF04097_consen  266 QVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFEI  340 (613)
T ss_dssp             HHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTTT
T ss_pred             HHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHhc
Confidence            444556777777777765  1122344444444444433322222111   1111110 00111334455555554   3


Q ss_pred             CCHHHHHHHHHhcC
Q 044352          333 GSLKDARTLFEITR  346 (544)
Q Consensus       333 ~~~~~A~~~~~~~~  346 (544)
                      .+...|.+++--+.
T Consensus       341 td~~~Al~Y~~li~  354 (613)
T PF04097_consen  341 TDPREALQYLYLIC  354 (613)
T ss_dssp             T-HHHHHHHHHGGG
T ss_pred             cCHHHHHHHHHHHH
Confidence            45666666665443

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=85.72  E-value=13  Score=31.20  Aligned_cols=68  Identities=10%  Similarity=0.008  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhcc-------CCChhhHHHHHHHHhccCChhHH
Q 044352          130 KKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMF-------ERDVVSWTSMISGYCNVSKVDEA  198 (544)
Q Consensus       130 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-------~~~~~~~~~l~~~~~~~~~~~~a  198 (544)
                      +.|.+.|-.+...+.-.++.....|...|. ..+.+++..++....       ..|+..+..|++.+.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            344444545554444444444444444444 344455555544442       13455555566666555555554

>KOG3824 consensus Huntingtin interacting protein HYPE [General function prediction only]

Probab=85.67  E-value=2.4  Score=37.51  Aligned_cols=52  Identities=15%  Similarity=0.162  Sum_probs=39.8

Q ss_pred             HhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          463 CNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       463 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      ..+.|+.++|..+|+.++.+.|.++.++..+|......++.-+|-++|-+++
T Consensus       126 ~~~~Gk~ekA~~lfeHAlalaP~~p~~L~e~G~f~E~~~~iv~ADq~Y~~AL  177 (472)
T KOG3824|consen  126 SRKDGKLEKAMTLFEHALALAPTNPQILIEMGQFREMHNEIVEADQCYVKAL  177 (472)
T ss_pred             HHhccchHHHHHHHHHHHhcCCCCHHHHHHHhHHHHhhhhhHhhhhhhheee
Confidence            4467788888888888888888888888888887777777777777775544

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.67  E-value=10  Score=34.03  Aligned_cols=100  Identities=14%  Similarity=0.162  Sum_probs=58.6

Q ss_pred             CCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccC-CCh-----hhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhh
Q 044352          143 GFENDVSVGNALIDMYSKCGLLCSARRVFHGMFE-RDV-----VSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFT  216 (544)
Q Consensus       143 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  216 (544)
                      |.+....+...++..-....+++.+...+-++.. ++.     .+-.++++.+ -.-++++++.++..=...|+-||..+
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll-lky~pq~~i~~l~npIqYGiF~dqf~  137 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQFT  137 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH-HccChHHHHHHHhCcchhccccchhh
Confidence            3344444555555555555667777666655533 111     0111222222 23456677777776677777777777


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044352          217 YNAIIASYARRGDSNAAFAFFSRMTAE  243 (544)
Q Consensus       217 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  243 (544)
                      ++.+|+.+.+.+++.+|..+.-.|..+
T Consensus       138 ~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  138 FCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            777777777777777777766665543

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=85.48  E-value=47  Score=34.16  Aligned_cols=49  Identities=18%  Similarity=0.294  Sum_probs=32.2

Q ss_pred             cCChHHHHHHHHHHHHcC---CCCchhHH------HHHHHHHhcCChHHHHHHHHHHH
Q 044352          466 HGRRDLAVTMGEEFFEMG---LRKPDGFV------MLSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       466 ~g~~~~A~~~~~~~~~~~---p~~~~~~~------~l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      .|+..+.......+..+-   |+......      .+...+...|+.++|.....+..
T Consensus       547 ~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~~~~~~~~  604 (608)
T PF10345_consen  547 EGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAEEARQQLD  604 (608)
T ss_pred             cCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHH
Confidence            688888777777666544   33233322      34455778899999998877654

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=85.23  E-value=25  Score=30.79  Aligned_cols=242  Identities=14%  Similarity=0.110  Sum_probs=117.9

Q ss_pred             ChHHHHHHHHHhhhCCCCCCH---hHHHHHHHHHHcCCCHHHHHHHHHHHHH---cCC--CCCHHHHHHHHHHhhccCch
Q 044352          229 DSNAAFAFFSRMTAEGFVPDL---VTWNAMISGFAQSKRENEALKLFKGMLV---SGI--KPNNVTVTGVLQAGGLTGSI  300 (544)
Q Consensus       229 ~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~--~~~~~~~~~l~~~~~~~~~~  300 (544)
                      ++++|+.-|++..+..-....   .....++..+.+.+++++....|.+++.   ..+  ..+....+.++.-.....+.
T Consensus        42 ~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m  121 (440)
T KOG1464|consen   42 EPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNM  121 (440)
T ss_pred             CHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhh
Confidence            455555555554433111111   1223345555666666666666665542   111  11233344444444444444


Q ss_pred             HHHHHHHHHHHHc----C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc------------c---HHHHHHHHHHH
Q 044352          301 QIGREIHALVCRM----G-LHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK------------N---VASWNAMIGCY  360 (544)
Q Consensus       301 ~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~------------~---~~~~~~l~~~~  360 (544)
                      +....+++.-.+.    . -..--.+-..+...|...+++.....+++++...            +   ...|..-|+.|
T Consensus       122 ~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmY  201 (440)
T KOG1464|consen  122 DLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMY  201 (440)
T ss_pred             HHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhh
Confidence            4433333322111    0 0000112234566666777777777766655421            1   23577778888


Q ss_pred             HhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHH-----hcCCchHHHHHHHHHHHHHh---CCCCchhH--HHHHHH
Q 044352          361 GKHGMVDSSIELFERMLEEG-MRANEVTLISVLSAC-----SHGGLVEKGLEIFRSMKERY---GVKISKEH--YACVVD  429 (544)
Q Consensus       361 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~~~---~~~~~~~~--~~~l~~  429 (544)
                      ....+-..-..+|++.+.-. .-|.+.... +++-|     .+.|++++|-.-|-++-+.+   |.+....+  |..+..
T Consensus       202 T~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLAN  280 (440)
T KOG1464|consen  202 TEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLAN  280 (440)
T ss_pred             hhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHHH
Confidence            88888888888888776532 334444433 33333     46788888775444443332   22222222  444555


Q ss_pred             HHHhcCC----HHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHH
Q 044352          430 MLCRSGR----MVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMG  476 (544)
Q Consensus       430 ~~~~~g~----~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  476 (544)
                      .+.+.|-    -++|.-    ....|...+...++.+|.. ++..+-.+++
T Consensus       281 MLmkS~iNPFDsQEAKP----yKNdPEIlAMTnlv~aYQ~-NdI~eFE~Il  326 (440)
T KOG1464|consen  281 MLMKSGINPFDSQEAKP----YKNDPEILAMTNLVAAYQN-NDIIEFERIL  326 (440)
T ss_pred             HHHHcCCCCCcccccCC----CCCCHHHHHHHHHHHHHhc-ccHHHHHHHH
Confidence            5665551    111110    1145556677778777764 4554444433

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=84.76  E-value=0.98  Score=23.28  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=13.1

Q ss_pred             HHHHHHHHhhcCCChHHHHHHhc
Q 044352           49 LKSKLVGVYAGCGDVNSARLVFD   71 (544)
Q Consensus        49 ~~~~l~~~~~~~g~~~~A~~~~~   71 (544)
                      +...++..+...|++++|+.+++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHh
Confidence            34455556666666666665554

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>KOG0551 consensus Hsp90 co-chaperone CNS1 (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=84.72  E-value=4.4  Score=36.49  Aligned_cols=91  Identities=9%  Similarity=-0.047  Sum_probs=66.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC----CCCC--hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP----MYVT--NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI  496 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  496 (544)
                      .|..=+.-|.+..++..|...|.+-.    ..|+  ...|.+-+.+-...|++..|+.-..+++.++|.+..++..=+.+
T Consensus        83 n~KeeGN~~fK~Kryk~A~~~Yt~Glk~kc~D~dlnavLY~NRAAa~~~l~NyRs~l~Dcs~al~~~P~h~Ka~~R~Akc  162 (390)
T KOG0551|consen   83 NYKEEGNEYFKEKRYKDAVESYTEGLKKKCADPDLNAVLYTNRAAAQLYLGNYRSALNDCSAALKLKPTHLKAYIRGAKC  162 (390)
T ss_pred             HHHHHhHHHHHhhhHHHHHHHHHHHHhhcCCCccHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhhhhhhHH
Confidence            34444566777888888888887642    2232  34556666666677899999999999999999988888888888


Q ss_pred             HHhcCChHHHHHHHHHH
Q 044352          497 CAADGEWHEAENLRKIM  513 (544)
Q Consensus       497 ~~~~g~~~~A~~~~~~~  513 (544)
                      +....++++|....++.
T Consensus       163 ~~eLe~~~~a~nw~ee~  179 (390)
T KOG0551|consen  163 LLELERFAEAVNWCEEG  179 (390)
T ss_pred             HHHHHHHHHHHHHHhhh
Confidence            88888877666655443

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=84.71  E-value=13  Score=26.94  Aligned_cols=87  Identities=13%  Similarity=0.114  Sum_probs=51.4

Q ss_pred             ChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 044352          128 DIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKL  207 (544)
Q Consensus       128 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  207 (544)
                      ..++|..+-+.+...+- ....+.-.-+..+...|++++|..+.+...-||...|.++...  +.|-.++...-+.+|..
T Consensus        20 cHqEA~tIAdwL~~~~~-~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce~--rlGl~s~l~~rl~rla~   96 (115)
T TIGR02508        20 CHQEANTIADWLHLKGE-SEEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCEW--RLGLGSALESRLNRLAA   96 (115)
T ss_pred             HHHHHHHHHHHHhcCCc-hHHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHHH--hhccHHHHHHHHHHHHh
Confidence            34566666555554431 1222222233446677888888888888877888887766553  55666666666666666


Q ss_pred             cCCCCCHhhHH
Q 044352          208 EGLEPNQFTYN  218 (544)
Q Consensus       208 ~~~~~~~~~~~  218 (544)
                      .| .|....|.
T Consensus        97 sg-~p~lq~Fa  106 (115)
T TIGR02508        97 SG-DPRLQTFV  106 (115)
T ss_pred             CC-CHHHHHHH
Confidence            55 44444443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=84.39  E-value=21  Score=33.11  Aligned_cols=137  Identities=5%  Similarity=-0.126  Sum_probs=87.8

Q ss_pred             CCCCCCcchHHHHHHHhhcc------------chhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccC
Q 044352            7 PINNLSVNYLDCLLGKCMKS------------KALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKI   73 (544)
Q Consensus         7 ~~~~~~~~~~~~l~~~~~~~------------g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~   73 (544)
                      ..+|.+..++..++..--..            .-.+.-+.+++++++. |.+.. ++..++..+.+..+.+...+.++++
T Consensus        13 ~~~P~di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~np~~~~-L~l~~l~~~~~~~~~~~l~~~we~~   91 (321)
T PF08424_consen   13 RENPHDIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHNPDSER-LLLGYLEEGEKVWDSEKLAKKWEEL   91 (321)
T ss_pred             HhCcccHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            34566667777776542222            1245567889999998 76677 9999999999999999989999988


Q ss_pred             C---CCCchhHHHHHHHHHh---cCCHHHHHHHHHHHHhc------cc----cc----CHH---HHHHHHHHhhCCCChH
Q 044352           74 P---NPNVFMLNWMVMASAF---TGNFQEAIGYFSLMREF------IY----RC----NKF---TFSIVLKACVGLLDIK  130 (544)
Q Consensus        74 ~---~~~~~~~~~l~~~~~~---~~~~~~A~~~~~~~~~~------~~----~p----~~~---~~~~ll~~~~~~~~~~  130 (544)
                      .   +.+...|...+.....   .-.++....+|.+.++.      +.    .+    +..   .+..+...+...|..+
T Consensus        92 l~~~~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~~aG~~E  171 (321)
T PF08424_consen   92 LFKNPGSPELWREYLDFRQSNFASFTVSDVRDVYEKCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLRQAGYTE  171 (321)
T ss_pred             HHHCCCChHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHCCchH
Confidence            7   4466778888876654   33566777777765532      11    00    011   1222222334667777


Q ss_pred             HHHHHHHHHHHcCC
Q 044352          131 KGKQVHAVATQMGF  144 (544)
Q Consensus       131 ~a~~~~~~~~~~~~  144 (544)
                      .|..+++.+.+.++
T Consensus       172 ~Ava~~Qa~lE~n~  185 (321)
T PF08424_consen  172 RAVALWQALLEFNF  185 (321)
T ss_pred             HHHHHHHHHHHHHc
Confidence            77777777776654

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.33  E-value=12  Score=33.58  Aligned_cols=100  Identities=12%  Similarity=0.176  Sum_probs=69.8

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHHcC---CCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHH
Q 044352          178 DVVSWTSMISGYCNVSKVDEAVVLFERMKLEG---LEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNA  254 (544)
Q Consensus       178 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  254 (544)
                      +..+...++..-....+++.+...+-+++...   ..|+...+ .+++.+.+ -+.++++.++..=.+-|+-||..+++.
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlllk-y~pq~~i~~l~npIqYGiF~dqf~~c~  140 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQFTFCL  140 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHHc-cChHHHHHHHhCcchhccccchhhHHH
Confidence            34445555555555677888888887776431   12222222 23333333 467788888888888899999999999


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcC
Q 044352          255 MISGFAQSKRENEALKLFKGMLVSG  279 (544)
Q Consensus       255 l~~~~~~~~~~~~a~~~~~~~~~~~  279 (544)
                      +++.+.+.+++.+|..+...|..+.
T Consensus       141 l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  141 LMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHHH
Confidence            9999999999999999888887654

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=84.24  E-value=5.3  Score=30.73  Aligned_cols=68  Identities=7%  Similarity=-0.027  Sum_probs=52.6

Q ss_pred             CCChhHHHHHHHHHhhcC---ChHHHHHHHHHHHHc-CCC-CchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          450 YVTNSMAGAFRNGCNIHG---RRDLAVTMGEEFFEM-GLR-KPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       450 ~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~-~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .++..+-..+++++.+..   +..+.+.+++..++. .|. .......|+-.+++.|+|++++++.+.+++..
T Consensus        29 ~~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e  101 (149)
T KOG3364|consen   29 DVSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETE  101 (149)
T ss_pred             cchHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            556667777888887654   577889999999973 343 34567778889999999999999999888654

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=84.09  E-value=42  Score=32.47  Aligned_cols=241  Identities=9%  Similarity=-0.084  Sum_probs=126.4

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhhccC------chHHHHHHHHHHHHcC-C-CCCHHHHHHHHHHHHhcCCH-HH
Q 044352          267 EALKLFKGMLVSGIKPNNVTVTGVLQAGGLTG------SIQIGREIHALVCRMG-L-HIDVFTGSALIDMYSKCGSL-KD  337 (544)
Q Consensus       267 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~------~~~~a~~~~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~-~~  337 (544)
                      ....+|+...+.  -|+...+...|..|...-      .......+++...+.+ . +.....|..+...++..... .-
T Consensus       300 ~~~~v~ee~v~~--l~t~sm~e~YI~~~lE~~~~~r~~~I~h~~~~~~~~~~~~~l~~~~~~~ys~~~l~~~t~~~~r~~  377 (568)
T KOG2396|consen  300 RCCAVYEEAVKT--LPTESMWECYITFCLERFTFLRGKRILHTMCVFRKAHELKLLSECLYKQYSVLLLCLNTLNEAREV  377 (568)
T ss_pred             HHHHHHHHHHHH--hhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHhccchHhHH
Confidence            444566655532  344445555555443322      2333344444444332 1 22344555555555554443 33


Q ss_pred             HHHHHHhcCCccHHHHHHHHHHHHhcC-ChHHH-HHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc-hHHH--HHHHHHHH
Q 044352          338 ARTLFEITRIKNVASWNAMIGCYGKHG-MVDSS-IELFERMLEEGMRANEVTLISVLSACSHGGL-VEKG--LEIFRSMK  412 (544)
Q Consensus       338 A~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a--~~~~~~~~  412 (544)
                      |..+.......+...|..-+....+.. +++-- .+.+......-..+-...+....     .++ .+..  ..++..+.
T Consensus       378 a~~l~~e~f~~s~k~~~~kl~~~~~s~sD~q~~f~~l~n~~r~~~~s~~~~~w~s~~-----~~dsl~~~~~~~Ii~a~~  452 (568)
T KOG2396|consen  378 AVKLTTELFRDSGKMWQLKLQVLIESKSDFQMLFEELFNHLRKQVCSELLISWASAS-----EGDSLQEDTLDLIISALL  452 (568)
T ss_pred             HHHhhHHHhcchHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHhcchhHHHHHHHh-----hccchhHHHHHHHHHHHH
Confidence            444444555566666665555554321 22211 11222222211111112222222     222 2211  12333333


Q ss_pred             HHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHh--hcCChHHHHHHHHHHHHcCCCCch
Q 044352          413 ERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCN--IHGRRDLAVTMGEEFFEMGLRKPD  488 (544)
Q Consensus       413 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~--~~g~~~~A~~~~~~~~~~~p~~~~  488 (544)
                      .. +.+.....-+.+++-+.+.|-..+|..++..+.  -+++...+..++..-.  ..-+...++++|+.+..-...++.
T Consensus       453 s~-~~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~lpp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg~d~~  531 (568)
T KOG2396|consen  453 SV-IGADSVTLKSKYLDWAYESGGYKKARKVYKSLQELPPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFGADSD  531 (568)
T ss_pred             Hh-cCCceeehhHHHHHHHHHhcchHHHHHHHHHHHhCCCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhCCChH
Confidence            32 322233344567777888889999999998864  3556666666665322  223488889999999876667888


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          489 GFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       489 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      .|..+...-...|+.+.+-.++-++.+
T Consensus       532 lw~~y~~~e~~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  532 LWMDYMKEELPLGRPENCGQIYWRAMK  558 (568)
T ss_pred             HHHHHHHhhccCCCcccccHHHHHHHH
Confidence            888888877788999888888777665

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=83.88  E-value=8.1  Score=27.71  Aligned_cols=45  Identities=11%  Similarity=0.061  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHH
Q 044352           96 EAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVAT  140 (544)
Q Consensus        96 ~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  140 (544)
                      ++.+-++.+...++.|++......+++|.+.+++..|.++++-++
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            444555555555566666666666666666666666666666555

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.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=83.66  E-value=5.5  Score=33.56  Aligned_cols=65  Identities=9%  Similarity=-0.034  Sum_probs=48.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhC-CCCC-ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch
Q 044352          424 YACVVDMLCRSGRMVEAYDLLRQV-PMYV-TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD  488 (544)
Q Consensus       424 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  488 (544)
                      .+..+..+.+.+..++|+...+.- ..+| +...-..++..++-.|++++|..-++-+-++.|....
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~   70 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTV   70 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccch
Confidence            445566778888899988877653 3334 4556677778888999999999999988888886543

>PF07720 TPR_3: Tetratricopeptide repeat; InterPro: IPR011716 This entry includes tetratricopeptide-like repeats found in the LcrH/SycD-like chaperones []

Probab=83.60  E-value=4.3  Score=23.01  Aligned_cols=29  Identities=10%  Similarity=0.031  Sum_probs=14.0

Q ss_pred             HHHHHHHHhhcCChHHHHHH--HHHHHHcCC
Q 044352          456 AGAFRNGCNIHGRRDLAVTM--GEEFFEMGL  484 (544)
Q Consensus       456 ~~~l~~~~~~~g~~~~A~~~--~~~~~~~~p  484 (544)
                      +..++..+...|++++|+.+  |+-+..++|
T Consensus         4 ~y~~a~~~y~~~ky~~A~~~~~y~~l~~ld~   34 (36)
T PF07720_consen    4 LYGLAYNFYQKGKYDEAIHFFQYAFLCALDK   34 (36)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHhcc
Confidence            33444455555556666655  334444444

; PDB: 3KS2_O 3GZ2_A 3GZ1_A 3GYZ_A 4AM9_A 2VGX_A 2VGY_A.

>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]

Probab=83.45  E-value=2.2  Score=36.11  Aligned_cols=59  Identities=22%  Similarity=0.106  Sum_probs=33.5

Q ss_pred             HHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchh
Q 044352          431 LCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDG  489 (544)
Q Consensus       431 ~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  489 (544)
                      ..+.|+.+.|.+++.++.  .+.+...|..+...-.+.|+++.|.+.|++.++++|++...
T Consensus         5 ~~~~~D~~aaaely~qal~lap~w~~gwfR~g~~~ekag~~daAa~a~~~~L~ldp~D~~g   65 (287)
T COG4976           5 LAESGDAEAAAELYNQALELAPEWAAGWFRLGEYTEKAGEFDAAAAAYEEVLELDPEDHGG   65 (287)
T ss_pred             hcccCChHHHHHHHHHHhhcCchhhhhhhhcchhhhhcccHHHHHHHHHHHHcCCcccccc
Confidence            344556666666666553  23344555555555556666666666666666666654433

>PRK10941 hypothetical protein; Provisional

Probab=83.25  E-value=10  Score=33.81  Aligned_cols=68  Identities=10%  Similarity=-0.113  Sum_probs=48.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHH
Q 044352          425 ACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVM  492 (544)
Q Consensus       425 ~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  492 (544)
                      +.+-.+|.+.++++.|..+.+.+.  .+.++.-+.--+-.|.+.|.+..|..-++..++..|++|.+-..
T Consensus       185 ~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P~dp~a~~i  254 (269)
T PRK10941        185 DTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCPEDPISEMI  254 (269)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCCCchhHHHH
Confidence            344556777788888887777763  34455566666677888888888888888888888877765443

>KOG2422 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.03  E-value=26  Score=34.46  Aligned_cols=50  Identities=12%  Similarity=0.042  Sum_probs=27.8

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCC------------HHHHHHHHHHHhcCCchHHHHHHHHHH
Q 044352          361 GKHGMVDSSIELFERMLEEGMRAN------------EVTLISVLSACSHGGLVEKGLEIFRSM  411 (544)
Q Consensus       361 ~~~g~~~~A~~~~~~~~~~~~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~  411 (544)
                      ....-+++|...|.-.... ..|+            ..++..+...|...|+.+.|..++++.
T Consensus       249 ~hs~sYeqaq~~F~~av~~-~d~n~v~~lL~ssPYHvdsLLqva~~~r~qgD~e~aadLieR~  310 (665)
T KOG2422|consen  249 EHSNSYEQAQRDFYLAVIV-HDPNNVLILLISSPYHVDSLLQVADIFRFQGDREMAADLIERG  310 (665)
T ss_pred             ecchHHHHHHHHHHHHHhh-cCCcceeeeeccCCcchhHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            3455666676666665543 1222            224455555666667766666666554

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=83.01  E-value=10  Score=27.50  Aligned_cols=47  Identities=11%  Similarity=0.027  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHc
Q 044352           96 EAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQM  142 (544)
Q Consensus        96 ~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  142 (544)
                      +...-++.+...++.|++......+++|.+.+++..|.++++.+...
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            44445555555556666666666666666666666666666666544

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 ....

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=82.97  E-value=4.6  Score=29.18  Aligned_cols=54  Identities=13%  Similarity=0.119  Sum_probs=39.0

Q ss_pred             HhhcCChHHHHHHHHHHHHcCCC----C-----chhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          463 CNIHGRRDLAVTMGEEFFEMGLR----K-----PDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       463 ~~~~g~~~~A~~~~~~~~~~~p~----~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      ..+.|++.+|.+.+.+.......    .     ..+...++.++...|++++|...+++.++.
T Consensus         8 ~~~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~   70 (94)
T PF12862_consen    8 ALRSGDYSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRL   70 (94)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            44678888887777777664321    1     234566788888999999999999988753

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=82.34  E-value=1.2  Score=41.97  Aligned_cols=101  Identities=9%  Similarity=-0.027  Sum_probs=67.9

Q ss_pred             HHHHhcCCchHHHHHHHHHHHHHhCCCCchhH-HHHHHHHHHhcCCHHHHHHHHHhCC-CCCC-hhHHHHHHHHHhhcCC
Q 044352          392 LSACSHGGLVEKGLEIFRSMKERYGVKISKEH-YACVVDMLCRSGRMVEAYDLLRQVP-MYVT-NSMAGAFRNGCNIHGR  468 (544)
Q Consensus       392 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~g~  468 (544)
                      +..+...+.++.|..++.++++.   .|+... |..-..++.+.+++..|..=+..+. ..|. ...|..-+.++...+.
T Consensus        11 an~~l~~~~fd~avdlysKaI~l---dpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~~   87 (476)
T KOG0376|consen   11 ANEALKDKVFDVAVDLYSKAIEL---DPNCAIYFANRALAHLKVESFGGALHDALKAIELDPTYIKAYVRRGTAVMALGE   87 (476)
T ss_pred             HhhhcccchHHHHHHHHHHHHhc---CCcceeeechhhhhheeechhhhHHHHHHhhhhcCchhhheeeeccHHHHhHHH
Confidence            45566778888888888888763   554433 3333467778888888876665553 3333 2344444556777788


Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHH
Q 044352          469 RDLAVTMGEEFFEMGLRKPDGFVMLSN  495 (544)
Q Consensus       469 ~~~A~~~~~~~~~~~p~~~~~~~~l~~  495 (544)
                      +.+|+..|+....+.|+++.+...+-.
T Consensus        88 ~~~A~~~l~~~~~l~Pnd~~~~r~~~E  114 (476)
T KOG0376|consen   88 FKKALLDLEKVKKLAPNDPDATRKIDE  114 (476)
T ss_pred             HHHHHHHHHHhhhcCcCcHHHHHHHHH
Confidence            888888888888888887776655533

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.21  E-value=63  Score=34.27  Aligned_cols=27  Identities=15%  Similarity=0.257  Sum_probs=19.9

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHH
Q 044352          181 SWTSMISGYCNVSKVDEAVVLFERMKL  207 (544)
Q Consensus       181 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  207 (544)
                      -|..|+..|...|..++|+++|.+...
T Consensus       506 ~y~~Li~LY~~kg~h~~AL~ll~~l~d  532 (877)
T KOG2063|consen  506 KYRELIELYATKGMHEKALQLLRDLVD  532 (877)
T ss_pred             cHHHHHHHHHhccchHHHHHHHHHHhc
Confidence            466777777777777777777777764

>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion)

Probab=81.11  E-value=19  Score=26.43  Aligned_cols=97  Identities=9%  Similarity=-0.059  Sum_probs=60.0

Q ss_pred             HHHHHHhhccchhhhhhHHhHHHhhccc-chhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHH
Q 044352           17 DCLLGKCMKSKALRQGKQVHALLCTNDL-NIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQ   95 (544)
Q Consensus        17 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   95 (544)
                      ..++.+-......++|..+.+.+...+. ... +....+..+...|+|++|+..=.....||...|-.+..  .+.|--+
T Consensus        10 AElAL~atG~HcH~EA~tIa~wL~~~~~~~E~-v~lIr~~sLmNrG~Yq~ALl~~~~~~~pdL~p~~AL~a--~klGL~~   86 (116)
T PF09477_consen   10 AELALMATGHHCHQEANTIADWLEQEGEMEEV-VALIRLSSLMNRGDYQEALLLPQCHCYPDLEPWAALCA--WKLGLAS   86 (116)
T ss_dssp             HHHHHHHHTTT-HHHHHHHHHHHHHTTTTHHH-HHHHHHHHHHHTT-HHHHHHHHTTS--GGGHHHHHHHH--HHCT-HH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHhCCcHHHH-HHHHHHHHHHhhHHHHHHHHhcccCCCccHHHHHHHHH--HhhccHH
Confidence            3444444455678889988888887733 333 55556667788999999955555555777777766544  5778888


Q ss_pred             HHHHHHHHHHhcccccCHHHHH
Q 044352           96 EAIGYFSLMREFIYRCNKFTFS  117 (544)
Q Consensus        96 ~A~~~~~~~~~~~~~p~~~~~~  117 (544)
                      ++...+.++...| .|....|.
T Consensus        87 ~~e~~l~rla~~g-~~~~q~Fa  107 (116)
T PF09477_consen   87 ALESRLTRLASSG-SPELQAFA  107 (116)
T ss_dssp             HHHHHHHHHCT-S-SHHHHHHH
T ss_pred             HHHHHHHHHHhCC-CHHHHHHH
Confidence            8888888777654 33444443

The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=80.72  E-value=1.3  Score=39.75  Aligned_cols=87  Identities=15%  Similarity=0.055  Sum_probs=47.2

Q ss_pred             ccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHH
Q 044352           25 KSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGY  100 (544)
Q Consensus        25 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~  100 (544)
                      ..|.++.|++.+..+++. ++... .+....+++.+.++...|++-++...   +.+...|-.-..+....|++++|...
T Consensus       126 n~G~~~~ai~~~t~ai~lnp~~a~-l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~d  204 (377)
T KOG1308|consen  126 NDGEFDTAIELFTSAIELNPPLAI-LYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAHD  204 (377)
T ss_pred             cCcchhhhhcccccccccCCchhh-hcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHHH
Confidence            455666666666666666 44444 55666666666666666665555443   22222344444444445666666666


Q ss_pred             HHHHHhcccccC
Q 044352          101 FSLMREFIYRCN  112 (544)
Q Consensus       101 ~~~~~~~~~~p~  112 (544)
                      |+...+.++.+.
T Consensus       205 l~~a~kld~dE~  216 (377)
T KOG1308|consen  205 LALACKLDYDEA  216 (377)
T ss_pred             HHHHHhccccHH
Confidence            666655554443

---

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	544
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-15
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-05

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 79.5 bits (194), Expect = 1e-15
 Identities = 26/182 (14%), Positives = 58/182 (31%), Gaps = 8/182 (4%)

Query: 119 VLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFER- 177
           +L+   G L +   +      +Q           A          L  A  +      + 
Sbjct: 98  LLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQR 157

Query: 178 ------DVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRG-DS 230
                  +  + +++ G+       E V +   +K  GL P+  +Y A +    R+  D+
Sbjct: 158 QKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDA 217

Query: 231 NAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGV 290
                   +M+ EG     +    ++S   ++       K+     +    P  V  + +
Sbjct: 218 GTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKL 277

Query: 291 LQ 292
           L+
Sbjct: 278 LR 279

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 66.8 bits (161), Expect = 1e-11
 Identities = 22/152 (14%), Positives = 46/152 (30%), Gaps = 10/152 (6%)

Query: 191 NVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFA---FFSRMTAEGFVP 247
               +D       +     L   Q    A             A            +  + 
Sbjct: 104 GKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLL 163

Query: 248 DLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIH 307
            L  +NA++ G+A+     E + +   +  +G+ P+ ++    LQ  G     Q    I 
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQD--QDAGTIE 221

Query: 308 ALVCRMGLHIDVFTGSALIDMYSKCGSLKDAR 339
             + +M        G  L  +++     ++ R
Sbjct: 222 RCLEQMSQE-----GLKLQALFTAVLLSEEDR 248

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 64.5 bits (155), Expect = 6e-11
 Identities = 28/260 (10%), Positives = 70/260 (26%), Gaps = 7/260 (2%)

Query: 265 ENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSA 324
           +  A  L      +   P    +  +LQ      S+ + +       +  L        A
Sbjct: 73  KQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLA 132

Query: 325 LIDMYSKCGSLKDARTLFEITR-------IKNVASWNAMIGCYGKHGMVDSSIELFERML 377
                     L  A  L  +         +  +  +NA++  + + G     + +   + 
Sbjct: 133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK 192

Query: 378 EEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRM 437
           + G+  + ++  + L            +E       + G+K+     A ++    R+  +
Sbjct: 193 DAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVL 252

Query: 438 VEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC 497
              + +     +                   +D  V+  +    +   +      L    
Sbjct: 253 KAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMEL 312

Query: 498 AADGEWHEAENLRKIMKEKN 517
           A+       E      KE  
Sbjct: 313 ASRVCVVSVEKPTLPSKEVK 332

>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 = 44.8 bits (105), Expect = 8e-05
 Identities = 67/492 (13%), Positives = 142/492 (28%), Gaps = 163/492 (33%)

Query: 45  NIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPN-----VFM-----LNWMVMASAFTGNF 94
           +I S K ++  +      V+    +F  + +        F+     +N+  + S      
Sbjct: 44  SILS-KEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIK--- 99

Query: 95  QEAIGYFSLMREFIYRCNKF-----TFS----------IVLKACVGLLDIKKGKQV--HA 137
            E      + R +I + ++       F+          + L+    LL+++  K V    
Sbjct: 100 TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA--LLELRPAKNVLIDG 157

Query: 138 VATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDE 197
           V    G        +  +    +C       ++F          W ++    CN     E
Sbjct: 158 VL---GSGKTWVALDVCLSYKVQC---KMDFKIF----------WLNL--KNCNS---PE 196

Query: 198 AVVLFERMKLEGLEPNQFTYNAIIASYARRGDS--------NAAFAFFSRMTAEGFVPD- 248
            V          LE  Q     I  ++  R D         ++  A   R+       + 
Sbjct: 197 TV----------LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246

Query: 249 -LV---TWNAMISGFAQSKRENEALKLFKG---MLVSGIKPNNVTVTGVLQAGGLTGSIQ 301
            LV     NA            +A   F     +L++        VT  L A   T    
Sbjct: 247 LLVLLNVQNA------------KAWNAFNLSCKILLT---TRFKQVTDFLSAATTT---- 287

Query: 302 IGREIHALVCRMGLHIDVFTGSALIDMYSKC-----GSL-KDARTL--FEITRI-----K 348
                      +  H    T   +  +  K        L ++  T     ++ I      
Sbjct: 288 --------HISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD 339

Query: 349 NVASWN--AMIGCYGKHGMVDSSIE---------LFERM--LEEGMRANEVTL------- 388
            +A+W+    + C     +++SS+          +F+R+           + L       
Sbjct: 340 GLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDV 399

Query: 389 -----ISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSG-------R 436
                + V++      LVEK     +  +    +       +  +++  +          
Sbjct: 400 IKSDVMVVVNKLHKYSLVEK-----QPKESTISI------PSIYLELKVKLENEYALHRS 448

Query: 437 MVEAYDLLRQVP 448
           +V+ Y++ +   
Sbjct: 449 IVDHYNIPKTFD 460

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	544
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.98
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.95
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.94
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.92
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.91
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.9
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.89
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.89
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.88
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.88
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.87
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.85
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.85
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.85
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.85
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.84
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.84
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.84
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.82
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.82
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.82
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.81
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.81
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.81
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.76
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.76
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.74
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.74
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.73
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.71
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.69
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.69
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.69
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.67
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.67
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.67
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.67
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.67
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.66
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.66
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.66
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.66
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.65
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.65
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.64
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.64
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.63
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.63
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.62
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.62
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.62
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.61
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.6
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.6
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.57
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.57
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.55
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.55
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.55
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.54
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.52
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.52
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.52
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.51
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.5
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.48
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.47
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.47
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.46
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.43
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.43
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.39
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.37
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.35
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.34
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.34
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.32
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.31
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.3
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.29
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.29
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.29
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.28
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.27
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.27
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.26
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.25
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.24
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.22
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.19
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.19
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.19
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.19
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.18
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.17
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.15
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.14
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.14
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.13
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.13
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.13
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.12
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.12
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.11
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.08
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.07
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.07
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.06
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.06
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.06
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.04
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.04
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.01
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.01
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.01
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	99.0
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.99
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.98
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.98
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.97
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.97
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.96
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.95
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.95
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.94
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.93
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.93
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.93
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.91
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.91
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.89
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.88
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.85
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.85
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.84
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.83
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.83
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.83
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.82
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.82
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.81
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.8
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.8
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.78
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.78
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.75
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.74
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.74
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.72
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.72
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.72
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.71
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.71
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.71
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.71
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.68
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.66
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.65
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.64
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.64
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.63
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.62
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.62
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.61
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.6
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.58
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.57
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.56
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.56
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.56
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.55
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.54
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.53
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.5
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.5
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.49
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.49
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.49
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.48
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.45
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.42
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.42
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.4
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.4
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.38
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.37
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.36
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.35
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.33
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.32
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.29
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.25
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.2
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.17
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.09
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.08
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	98.0
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.99
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.87
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.87
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.8
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.78
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.67
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.63
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.6
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.58
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	97.56
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.51
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.49
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.45
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.43
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.41
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.4
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.4
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.36
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.35
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.99
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.96
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.94
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.84
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.4
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.36
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.28
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.18
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.16
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.94
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	95.68
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.62
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	95.44
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	95.41
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.22
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.06
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.94
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	94.81
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	94.52
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.42
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	94.35
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.13
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.91
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	92.19
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	91.26
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	90.94
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	90.83
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	90.72
2p58_C	116	Putative type III secretion protein YSCG; type III	90.62
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	90.14
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	89.79
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	89.25
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.18
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	89.17
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	87.55
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	86.97
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	86.18
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	85.54
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	85.47
2p58_C	116	Putative type III secretion protein YSCG; type III	85.05
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	84.58
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	83.68
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	83.53
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	81.78

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

Probab=100.00  E-value=3e-41  Score=342.14  Aligned_cols=449  Identities=9%  Similarity=-0.058  Sum_probs=384.2

Q ss_pred             hhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHH
Q 044352           57 YAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVH  136 (544)
Q Consensus        57 ~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  136 (544)
                      +...|....+...+...+.+++..|+.++..+.+.|++++|+.+|++|..  ..|+..++..++.+|.+.|++++|..++
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~  140 (597)
T 2xpi_A           63 TSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLL  140 (597)
T ss_dssp             -------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHH
Confidence            45567777888888888878899999999999999999999999999986  5678889999999999999999999999


Q ss_pred             HHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCC-------------------ChhhHHHHHHHHhccCChhH
Q 044352          137 AVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFER-------------------DVVSWTSMISGYCNVSKVDE  197 (544)
Q Consensus       137 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------------------~~~~~~~l~~~~~~~~~~~~  197 (544)
                      +.+...  +++..+++.++.+|.+.|++++|..+|+++...                   +..+|+.++.+|.+.|++++
T Consensus       141 ~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  218 (597)
T 2xpi_A          141 TKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDR  218 (597)
T ss_dssp             HHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHH
Confidence            988654  688899999999999999999999999965443                   37899999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHhhHHH--------------------------------------HHHHHHhcCChHHHHHHHHH
Q 044352          198 AVVLFERMKLEGLEPNQFTYNA--------------------------------------IIASYARRGDSNAAFAFFSR  239 (544)
Q Consensus       198 a~~~~~~~~~~~~~~~~~~~~~--------------------------------------l~~~~~~~~~~~~a~~~~~~  239 (544)
                      |.+.|+++.+.+ +.+...+..                                      ++..|.+.|++++|.++|++
T Consensus       219 A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~  297 (597)
T 2xpi_A          219 AKECYKEALMVD-AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSS  297 (597)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhC-chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHH
Confidence            999999998764 222333322                                      24456678899999999999


Q ss_pred             hhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCH
Q 044352          240 MTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDV  319 (544)
Q Consensus       240 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  319 (544)
                      +.+.  +++..+|+.++.+|.+.|++++|..+|+++.+.+ +.+..++..++.++...|++++|..+++.+.+.. +.+.
T Consensus       298 ~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~  373 (597)
T 2xpi_A          298 INGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKA  373 (597)
T ss_dssp             STTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSH
T ss_pred             hhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccH
Confidence            9866  6899999999999999999999999999999876 4577889999999999999999999999998765 5578


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhcC---CccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 044352          320 FTGSALIDMYSKCGSLKDARTLFEITR---IKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACS  396 (544)
Q Consensus       320 ~~~~~l~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  396 (544)
                      .++..++.+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..++..++.+|.
T Consensus       374 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  452 (597)
T 2xpi_A          374 VTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHM  452 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            899999999999999999999999775   3567899999999999999999999999999863 558889999999999


Q ss_pred             cCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-------CCCC--hhHHHHHHHHHhhcC
Q 044352          397 HGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-------MYVT--NSMAGAFRNGCNIHG  467 (544)
Q Consensus       397 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~--~~~~~~l~~~~~~~g  467 (544)
                      +.|++++|.++|+++.+.  .+.+..+|..++..|.+.|++++|.++|+++.       ..|+  ..+|..++.+|.+.|
T Consensus       453 ~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  530 (597)
T 2xpi_A          453 QLGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLK  530 (597)
T ss_dssp             HHTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTT
T ss_pred             HcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhc
Confidence            999999999999999874  45578899999999999999999999999873       3566  678999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          468 RRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       468 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ++++|+..++++++.+|+++.++..++.+|.+.|++++|.++++++++..
T Consensus       531 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          531 MYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAIS  580 (597)
T ss_dssp             CHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999864

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

Probab=100.00  E-value=7.2e-42  Score=346.63  Aligned_cols=481  Identities=10%  Similarity=-0.035  Sum_probs=411.9

Q ss_pred             CCcchHHHHHHHhhccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCC--CCCchhHHHHHHHH
Q 044352           11 LSVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP--NPNVFMLNWMVMAS   88 (544)
Q Consensus        11 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~   88 (544)
                      ++...|..++..+.+.|++++|..+++++++..|+.. .+..++.+|.+.|++++|+.+|+.+.  ++++.+++.++.+|
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~  160 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDITGNPN-DAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFCL  160 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCCHH-HHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhhCCCch-HHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHHH
Confidence            4566789999999999999999999999997766777 88899999999999999999999984  78899999999999


Q ss_pred             HhcCCHHHHHHHHHHHHhc---------------ccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHH
Q 044352           89 AFTGNFQEAIGYFSLMREF---------------IYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNA  153 (544)
Q Consensus        89 ~~~~~~~~A~~~~~~~~~~---------------~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  153 (544)
                      .+.|++++|+.+|+++...               +.+++..+|..++.+|.+.|++++|..+|+++.+.+ +.+...+..
T Consensus       161 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~  239 (597)
T 2xpi_A          161 VKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD-AKCYEAFDQ  239 (597)
T ss_dssp             HHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-chhhHHHHH
Confidence            9999999999999954321               223467899999999999999999999999999875 455666666


Q ss_pred             HHHHHHhCCCHHHHHHH---HhhccCC----ChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh
Q 044352          154 LIDMYSKCGLLCSARRV---FHGMFER----DVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYAR  226 (544)
Q Consensus       154 l~~~~~~~~~~~~A~~~---~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  226 (544)
                      +...+...+..+.+...   +..+...    ....|+.++..|.+.|++++|.++|+++.+.  +++..++..++..|.+
T Consensus       240 l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~  317 (597)
T 2xpi_A          240 LVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFV  317 (597)
T ss_dssp             HHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHH
T ss_pred             HHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHH
Confidence            66655444333222211   2222222    2345666788889999999999999998865  6889999999999999


Q ss_pred             cCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHH
Q 044352          227 RGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREI  306 (544)
Q Consensus       227 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  306 (544)
                      .|++++|.++|+++.+.+ +.+..++..++.++.+.|++++|..+++++.+.. +.+..++..++..+...|++++|..+
T Consensus       318 ~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  395 (597)
T 2xpi_A          318 RSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRY  395 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHH
Confidence            999999999999998775 5578889999999999999999999999998654 56788899999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 044352          307 HALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRA  383 (544)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  383 (544)
                      |+.+.+.. +.+..++..++.+|.+.|++++|.++|+++..   .+..+|..++.+|.+.|++++|.++|+++.+.. +.
T Consensus       396 ~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~  473 (597)
T 2xpi_A          396 FSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QY  473 (597)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CC
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CC
Confidence            99998875 44688999999999999999999999997653   477899999999999999999999999999863 55


Q ss_pred             CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHh---CCCCc--hhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHH
Q 044352          384 NEVTLISVLSACSHGGLVEKGLEIFRSMKERY---GVKIS--KEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMA  456 (544)
Q Consensus       384 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~  456 (544)
                      +..++..++..|.+.|++++|.++|+++.+..   +..|+  ..+|..++.+|.+.|++++|.++++++.  .+.+..++
T Consensus       474 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  553 (597)
T 2xpi_A          474 DPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVH  553 (597)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHH
T ss_pred             ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHH
Confidence            78999999999999999999999999997753   44666  7899999999999999999999999874  45578899


Q ss_pred             HHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHh
Q 044352          457 GAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAA  499 (544)
Q Consensus       457 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  499 (544)
                      ..++.+|...|++++|...|+++++++|+++.++..++.+|..
T Consensus       554 ~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~  596 (597)
T 2xpi_A          554 TAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALEE  596 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999988753

>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=100.00  E-value=7.4e-30  Score=243.76  Aligned_cols=374  Identities=11%  Similarity=0.081  Sum_probs=258.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhccccc-CHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCC
Q 044352           85 VMASAFTGNFQEAIGYFSLMREFIYRC-NKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGL  163 (544)
Q Consensus        85 ~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  163 (544)
                      ...+.+.|++++|++.++++.+.  .| +...+..+...+...|++++|...++...+.. |.+..++..+..++.+.|+
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            44556677777777777777663  23 33445555556666777777777776666654 4556666666666666666


Q ss_pred             HHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHh
Q 044352          164 LCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRM  240 (544)
Q Consensus       164 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  240 (544)
                      +++|...|+++..   .+..+|..+..++...|++++|...|.++.+.. +.+...+..+...+...|++++|.+.|+++
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  161 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            6666666666533   233455666666666666666666666655542 222334444555555556666666666655


Q ss_pred             hhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHH
Q 044352          241 TAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVF  320 (544)
Q Consensus       241 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  320 (544)
                      .+.. +.+..+|..+...+...|++++|...|+++++.                                   + +.+..
T Consensus       162 l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-----------------------------------~-p~~~~  204 (388)
T 1w3b_A          162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTL-----------------------------------D-PNFLD  204 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-----------------------------------C-TTCHH
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-----------------------------------C-CCcHH
Confidence            5442 233455555555566666666666665555543                                   2 22344


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcC---CccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 044352          321 TGSALIDMYSKCGSLKDARTLFEITR---IKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSH  397 (544)
Q Consensus       321 ~~~~l~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  397 (544)
                      .+..+...+...|++++|...+++..   ..+..++..++.++...|++++|...++++.+.. +.+..++..+..++.+
T Consensus       205 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  283 (388)
T 1w3b_A          205 AYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKE  283 (388)
T ss_dssp             HHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHH
Confidence            55566666666666666666666443   2345677788888888888888888888888852 4457788888889999


Q ss_pred             CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHH
Q 044352          398 GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTM  475 (544)
Q Consensus       398 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~  475 (544)
                      .|++++|...++++.+.  .+.+..++..++..+.+.|++++|.+.++++.  .+.+..++..++.++.+.|++++|+..
T Consensus       284 ~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  361 (388)
T 1w3b_A          284 KGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMH  361 (388)
T ss_dssp             HSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999998874  46678888899999999999999999998874  344577889999999999999999999


Q ss_pred             HHHHHHcCCCCchhHHHHHHHHHhcCC
Q 044352          476 GEEFFEMGLRKPDGFVMLSNICAADGE  502 (544)
Q Consensus       476 ~~~~~~~~p~~~~~~~~l~~~~~~~g~  502 (544)
                      |+++++++|+++.++..++.++...|+
T Consensus       362 ~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          362 YKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            999999999999999999999888764

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.98  E-value=2.2e-28  Score=233.57  Aligned_cols=352  Identities=12%  Similarity=0.070  Sum_probs=250.9

Q ss_pred             HHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCH
Q 044352           19 LLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNF   94 (544)
Q Consensus        19 l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~   94 (544)
                      ++..+.+.|++++|.+.+..+++. |.+.. ++..++..+...|++++|...++...   |.+..+|..+..++.+.|++
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~-~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEPDNTG-VLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH
Confidence            456677899999999999999988 66666 88889999999999999999998765   66778899999999999999


Q ss_pred             HHHHHHHHHHHhcccccC-HHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhh
Q 044352           95 QEAIGYFSLMREFIYRCN-KFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHG  173 (544)
Q Consensus        95 ~~A~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  173 (544)
                      ++|+..|+++.+.  .|+ ..+|..+..++...|++++|...++.+.+.+ |.+...+..+..++...|++++|...|++
T Consensus        84 ~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           84 QEAIEHYRHALRL--KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            9999999999874  444 5578888889999999999999999988875 45566777788888888888888888887


Q ss_pred             ccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHh
Q 044352          174 MFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLV  250 (544)
Q Consensus       174 ~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  250 (544)
                      +.+   .+..+|..+...+...|++++|...|+++...+ +.+...+..+...+...|++++|...|++..+.. +.+..
T Consensus       161 al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~  238 (388)
T 1w3b_A          161 AIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAV  238 (388)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHH
Confidence            754   345677778888888888888888888877664 3345667777777778888888888887776653 33566


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 044352          251 TWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYS  330 (544)
Q Consensus       251 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  330 (544)
                      ++..+..++...|++++|...|+++++.+ +.+..++..+..++...|++++|...++.+.+.. +.+..++..++..+.
T Consensus       239 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  316 (388)
T 1w3b_A          239 VHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHH
Confidence            77777777888888888888887777653 2234455555556666666666666666555543 234444445555555


Q ss_pred             hcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 044352          331 KCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLE  378 (544)
Q Consensus       331 ~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  378 (544)
                      +.|++++|...++++..   .+..++..++.++...|++++|...++++.+
T Consensus       317 ~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          317 EQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             TTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            55555555555444432   1233444444444444444444444444443

>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=1.7e-28  Score=237.62  Aligned_cols=215  Identities=14%  Similarity=0.149  Sum_probs=154.2

Q ss_pred             HHHHHHHHHHHhcccccCHH-HHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhh
Q 044352           95 QEAIGYFSLMREFIYRCNKF-TFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHG  173 (544)
Q Consensus        95 ~~A~~~~~~~~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  173 (544)
                      ..+..+.+++.+++..+.+. .++.+|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.+....+      
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~------   80 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES------   80 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS------
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh------
Confidence            34555666777766655443 57888899999999999999999999999999999999999988877653221      


Q ss_pred             ccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHH
Q 044352          174 MFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWN  253 (544)
Q Consensus       174 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  253 (544)
                                      .+.+..++|.++|++|...|+.||..||+.+|.+|++.|++++|.++|++|.+.|+.||..+|+
T Consensus        81 ----------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn  144 (501)
T 4g26_A           81 ----------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYG  144 (501)
T ss_dssp             ----------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             ----------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceeh
Confidence                            2334456777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 044352          254 AMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSK  331 (544)
Q Consensus       254 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  331 (544)
                      .+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+.++|.+++++|.+.+..|+..+|+.++..|..
T Consensus       145 ~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          145 PALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            777777777777777777777777777777777777777777777777777777777777777777777777777664

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

Probab=99.96  E-value=1.3e-26  Score=230.22  Aligned_cols=263  Identities=9%  Similarity=-0.093  Sum_probs=167.4

Q ss_pred             hHHHHHHHHHHc---CCCHHHHHHHHHHHHH-----cCC--------CCCHHHHHHHHHHhhccCchHHHHHHHHHHHHc
Q 044352          250 VTWNAMISGFAQ---SKRENEALKLFKGMLV-----SGI--------KPNNVTVTGVLQAGGLTGSIQIGREIHALVCRM  313 (544)
Q Consensus       250 ~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  313 (544)
                      ..+......+..   .|++++|...|+++.+     ...        +.+..++..+...+...|+++.|...++.+.+.
T Consensus       187 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  266 (514)
T 2gw1_A          187 DKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIEL  266 (514)
T ss_dssp             HHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            334334444443   6666666666666665     211        112334555556666666666666666666665


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 044352          314 GLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLIS  390 (544)
Q Consensus       314 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  390 (544)
                      ...  ..++..++.++...|++++|...++.+..   .+...+..+...+...|++++|...++++.... +.+..++..
T Consensus       267 ~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  343 (514)
T 2gw1_A          267 FPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQ  343 (514)
T ss_dssp             CCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHH
T ss_pred             Ccc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHH
Confidence            433  55666666666777777777666665543   345566667777777777777777777776642 334566666


Q ss_pred             HHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC----CCCC----hhHHHHHHHH
Q 044352          391 VLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP----MYVT----NSMAGAFRNG  462 (544)
Q Consensus       391 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~  462 (544)
                      +...+...|++++|...++++.+.  .+.+...+..++..+...|++++|...++++.    ..++    ...+..++..
T Consensus       344 l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~  421 (514)
T 2gw1_A          344 LACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATL  421 (514)
T ss_dssp             HHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHH
Confidence            777777777777777777777653  23345666677777777777777777776652    1111    2366666777


Q ss_pred             Hhh---cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          463 CNI---HGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       463 ~~~---~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +..   .|++++|+..++++++.+|+++.++..++.++.+.|++++|...++++++..
T Consensus       422 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  479 (514)
T 2gw1_A          422 LTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLA  479 (514)
T ss_dssp             HHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhc
Confidence            777   7777777777777777777777777777777777777777777777776654

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

Probab=99.96  E-value=8.2e-26  Score=224.40  Aligned_cols=453  Identities=11%  Similarity=-0.057  Sum_probs=276.9

Q ss_pred             chHHHHHHHhhccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHh
Q 044352           14 NYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAF   90 (544)
Q Consensus        14 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~   90 (544)
                      .++...+..+.+.|++++|+..|+++++..|+.. ++..++.++...|++++|+..|+++.   |.+..+|..++.++..
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~-~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~   85 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELKEDPV-FYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEG   85 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHCCCHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcCccHH-HHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHH
Confidence            3455556666666666666666666666644555 66666666666666666666666544   4444556666666666


Q ss_pred             cCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHH
Q 044352           91 TGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRV  170 (544)
Q Consensus        91 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  170 (544)
                      .|++++|+..|+++...+. ++......++..+........+...+..+...+..|+................       
T Consensus        86 ~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-------  157 (514)
T 2gw1_A           86 LGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQEN-------  157 (514)
T ss_dssp             TTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------C-------
T ss_pred             HhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccC-------
Confidence            6666666666666655431 22222222322222222222222222222111111111100000000000000       


Q ss_pred             HhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh---cCChHHHHHHHHHhhh-----
Q 044352          171 FHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYAR---RGDSNAAFAFFSRMTA-----  242 (544)
Q Consensus       171 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----  242 (544)
                           .++.......+..+......    .      ....+.+...+......+..   .|++++|..+|+++.+     
T Consensus       158 -----~~~~~~~~~~~~~~~~~~~~----~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~  222 (514)
T 2gw1_A          158 -----LPSVTSMASFFGIFKPELTF----A------NYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQ  222 (514)
T ss_dssp             -----CCCHHHHHHHHTTSCCCCCC----S------SCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHH
T ss_pred             -----CchhHHHHHHHhhcCHHHHH----H------HhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhh
Confidence                 01111110000000000000    0      00001123333334444443   6777777777777665     


Q ss_pred             CCC--------CCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcC
Q 044352          243 EGF--------VPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMG  314 (544)
Q Consensus       243 ~~~--------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  314 (544)
                      ..-        +.+...+..+...+...|++++|...++++.+..  |+...+..+..++...|++++|...++.+.+..
T Consensus       223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  300 (514)
T 2gw1_A          223 LDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD  300 (514)
T ss_dssp             TTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC
T ss_pred             hccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC
Confidence            210        1234566667777778888888888888877654  336667777777778888888888888777664


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcC---CccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 044352          315 LHIDVFTGSALIDMYSKCGSLKDARTLFEITR---IKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISV  391 (544)
Q Consensus       315 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  391 (544)
                       +.+..++..+..++...|++++|...++.+.   ..+...+..+...+...|++++|...++++.+. .+.+..++..+
T Consensus       301 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l  378 (514)
T 2gw1_A          301 -SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRK-FPEAPEVPNFF  378 (514)
T ss_dssp             -TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH-STTCSHHHHHH
T ss_pred             -cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-cccCHHHHHHH
Confidence             3356677788888888888888888887654   345678888888999999999999999999886 24467788889


Q ss_pred             HHHHhcCCchHHHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHh---cCCHHHHHHHHHhCC--CCCChhHHHHHHHH
Q 044352          392 LSACSHGGLVEKGLEIFRSMKERYGVKIS----KEHYACVVDMLCR---SGRMVEAYDLLRQVP--MYVTNSMAGAFRNG  462 (544)
Q Consensus       392 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  462 (544)
                      ...+...|++++|...++++.+.....++    ...+..++.++..   .|++++|...++++.  .+.+..++..++.+
T Consensus       379 a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~  458 (514)
T 2gw1_A          379 AEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQM  458 (514)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            99999999999999999998775222222    3388889999999   999999999998874  45567788999999


Q ss_pred             HhhcCChHHHHHHHHHHHHcCCCCchhHHHHH
Q 044352          463 CNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLS  494 (544)
Q Consensus       463 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  494 (544)
                      +...|++++|...++++++++|.++..+..+.
T Consensus       459 ~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  490 (514)
T 2gw1_A          459 KLQQEDIDEAITLFEESADLARTMEEKLQAIT  490 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCSSHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhccccHHHHHHHH
Confidence            99999999999999999999999888877663

>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=99.95  E-value=2.1e-27  Score=229.98  Aligned_cols=188  Identities=13%  Similarity=0.166  Sum_probs=140.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCC---------hHHHHHHHHHHHHcCCCCChh
Q 044352           79 FMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLD---------IKKGKQVHAVATQMGFENDVS  149 (544)
Q Consensus        79 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~~  149 (544)
                      ..++.+|.+|++.|++++|+++|++|.+.|+.||..||+.+|.+|++.+.         ++.|.++|++|...|+.||..
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~  106 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEA  106 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHH
Confidence            35888999999999999999999999999999999999999999987664         567788888888877777776


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCC
Q 044352          150 VGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGD  229 (544)
Q Consensus       150 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  229 (544)
                      +|+.+|.+|++                               .|++++|.++|++|.+.|+.||..+|+.+|.+|++.|+
T Consensus       107 tyn~lI~~~~~-------------------------------~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~  155 (501)
T 4g26_A          107 TFTNGARLAVA-------------------------------KDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGD  155 (501)
T ss_dssp             HHHHHHHHHHH-------------------------------HTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHh-------------------------------cCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCC
Confidence            66665555555                               45555555666666666666677777777777777777


Q ss_pred             hHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhcc
Q 044352          230 SNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLT  297 (544)
Q Consensus       230 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  297 (544)
                      +++|.++|++|.+.|+.||..+|+.|+.+|++.|+.++|.++|++|.+.|..|+..||..++..++..
T Consensus       156 ~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          156 ADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            77777777777666666777777777777777777777777777776666667766666666665543

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.95  E-value=2.1e-25  Score=222.78  Aligned_cols=433  Identities=11%  Similarity=0.000  Sum_probs=272.5

Q ss_pred             chhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHH
Q 044352           45 NIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLK  121 (544)
Q Consensus        45 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~  121 (544)
                      ... .+..++..+.+.|++++|+..|+++.   |.++.+|..+..++...|++++|++.|+++.+.+ +.+..++..+..
T Consensus        24 ~a~-~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~  101 (537)
T 3fp2_A           24 YAV-QLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRAS  101 (537)
T ss_dssp             HHH-HHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHH-HHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHH
Confidence            345 77888888888888888888888876   5677788888888888888888888888888753 235667777888


Q ss_pred             HhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCC------hhhHHHHHHHHhccCCh
Q 044352          122 ACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERD------VVSWTSMISGYCNVSKV  195 (544)
Q Consensus       122 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~l~~~~~~~~~~  195 (544)
                      .+...|++++|...++ ....  .|+.  ....+..+...+....|...++.+...+      .......+..+....+.
T Consensus       102 ~~~~~g~~~~A~~~~~-~~~~--~~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  176 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLS-VLSL--NGDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDS  176 (537)
T ss_dssp             HHHHHTCHHHHHHHHH-HHC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCH
T ss_pred             HHHHcCCHHHHHHHHH-HHhc--CCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcCh
Confidence            8888888888888885 3322  2221  1222334445555677777777775421      11223344445555555


Q ss_pred             hHHHHHHHHHHHcCCCCCHh-hHHHHHHHHHhc--------CChHHHHHHHHHhhhCCCCCC-------HhHHHHHHHHH
Q 044352          196 DEAVVLFERMKLEGLEPNQF-TYNAIIASYARR--------GDSNAAFAFFSRMTAEGFVPD-------LVTWNAMISGF  259 (544)
Q Consensus       196 ~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~-------~~~~~~l~~~~  259 (544)
                      +.+...+......  .+... ....+...+...        +++++|..+|+++.+.. +.+       ..++..+...+
T Consensus       177 ~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~g~~~  253 (537)
T 3fp2_A          177 HLEVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN-TVDDPLRENAALALCYTGIFH  253 (537)
T ss_dssp             HHHHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC-CCcchhhHHHHHHHHHHHHHH
Confidence            5555444332211  22222 222233332222        36778888888877653 222       22456666777


Q ss_pred             HcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 044352          260 AQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDAR  339 (544)
Q Consensus       260 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  339 (544)
                      ...|++++|...++++.+.  .|+...+..+...+...|+++.|...+..+.+.. +.+..++..+...+...|++++|.
T Consensus       254 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  330 (537)
T 3fp2_A          254 FLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAK  330 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHH
Confidence            7888888888888888765  3556677777778888888888888888877765 335667777777777777777777


Q ss_pred             HHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhC
Q 044352          340 TLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYG  416 (544)
Q Consensus       340 ~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  416 (544)
                      ..++.+..   .+...|..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+...
T Consensus       331 ~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~  409 (537)
T 3fp2_A          331 EDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEE  409 (537)
T ss_dssp             HHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC
Confidence            77776542   345567777777777777777777777777652 44556677777777777777777777777665421


Q ss_pred             CCCc----hhHHHHHHHHHHhc----------CCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHH
Q 044352          417 VKIS----KEHYACVVDMLCRS----------GRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFF  480 (544)
Q Consensus       417 ~~~~----~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  480 (544)
                      ..++    ...+...+.++...          |++++|...|+++.  .+.+..++..++.++...|++++|...|++++
T Consensus       410 ~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  489 (537)
T 3fp2_A          410 VQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSA  489 (537)
T ss_dssp             HCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            1111    11233444555555          77777777776653  33445566666667777777777777777777


Q ss_pred             HcCCCCchhHH
Q 044352          481 EMGLRKPDGFV  491 (544)
Q Consensus       481 ~~~p~~~~~~~  491 (544)
                      +++|.++....
T Consensus       490 ~~~~~~~~~~~  500 (537)
T 3fp2_A          490 ILARTMDEKLQ  500 (537)
T ss_dssp             HHC--CHHHHH
T ss_pred             HhCCCcHHHHH
Confidence            77766555433

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.95  E-value=3.9e-25  Score=220.79  Aligned_cols=423  Identities=11%  Similarity=0.022  Sum_probs=329.3

Q ss_pred             CcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHH
Q 044352           12 SVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMA   87 (544)
Q Consensus        12 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~   87 (544)
                      ....+..++..+.+.|++++|+..|+++++. |.+.. ++..++.+|...|++++|+..|+++.   |.++.++..+..+
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~  102 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPV-FYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcH-HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHH
Confidence            3567899999999999999999999999999 77777 99999999999999999999999876   6778899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCC--CCChhHHHHHHHHHHhCCCHH
Q 044352           88 SAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGF--ENDVSVGNALIDMYSKCGLLC  165 (544)
Q Consensus        88 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~  165 (544)
                      +...|++++|+..|+ ....  .|+..  ...+..+...+....|...++.+.....  .+........+..+....+.+
T Consensus       103 ~~~~g~~~~A~~~~~-~~~~--~~~~~--~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  177 (537)
T 3fp2_A          103 NESLGNFTDAMFDLS-VLSL--NGDFD--GASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSH  177 (537)
T ss_dssp             HHHHTCHHHHHHHHH-HHC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHH
T ss_pred             HHHcCCHHHHHHHHH-HHhc--CCCCC--hHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChH
Confidence            999999999999996 4332  23322  1123333444556778888888765410  111111233445566778888


Q ss_pred             HHHHHHhhccCCChh---hHHHHHHHHhcc--------CChhHHHHHHHHHHHcCCCCC--------HhhHHHHHHHHHh
Q 044352          166 SARRVFHGMFERDVV---SWTSMISGYCNV--------SKVDEAVVLFERMKLEGLEPN--------QFTYNAIIASYAR  226 (544)
Q Consensus       166 ~A~~~~~~~~~~~~~---~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~--------~~~~~~l~~~~~~  226 (544)
                      .+...+......+..   ....+...+...        |++++|..+|+++.+..  |+        ..++..+...+..
T Consensus       178 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~g~~~~~  255 (537)
T 3fp2_A          178 LEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN--TVDDPLRENAALALCYTGIFHFL  255 (537)
T ss_dssp             HHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC--CCcchhhHHHHHHHHHHHHHHHh
Confidence            888877777664433   334444333332        47899999999998653  33        2346677788889


Q ss_pred             cCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHH
Q 044352          227 RGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREI  306 (544)
Q Consensus       227 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  306 (544)
                      .|++++|...|+++.+.  .|+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...
T Consensus       256 ~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  332 (537)
T 3fp2_A          256 KNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKED  332 (537)
T ss_dssp             TTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHH
Confidence            99999999999999887  5668889999999999999999999999999765 45677899999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC---
Q 044352          307 HALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEG---  380 (544)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---  380 (544)
                      ++.+.+.. +.+..++..+..++...|++++|..+++.+..   .+...+..+...+...|++++|...++++.+..   
T Consensus       333 ~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~  411 (537)
T 3fp2_A          333 FQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQ  411 (537)
T ss_dssp             HHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcc
Confidence            99999876 33567888999999999999999999987763   456789999999999999999999999988742   


Q ss_pred             --CCCCHHHHHHHHHHHhcC----------CchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC
Q 044352          381 --MRANEVTLISVLSACSHG----------GLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP  448 (544)
Q Consensus       381 --~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  448 (544)
                        .......+.....++...          |++++|...++++.+.  .+.+...+..++.+|.+.|++++|.+.|+++.
T Consensus       412 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  489 (537)
T 3fp2_A          412 EKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL--DPRSEQAKIGLAQLKLQMEKIDEAIELFEDSA  489 (537)
T ss_dssp             SSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence              111223345556677777          9999999999999884  45567889999999999999999999999874

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.95  E-value=4.3e-24  Score=208.22  Aligned_cols=342  Identities=11%  Similarity=0.020  Sum_probs=224.9

Q ss_pred             CChhHHHHHHHHHHhCCCHHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 044352          146 NDVSVGNALIDMYSKCGLLCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIA  222 (544)
Q Consensus       146 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  222 (544)
                      .+...+..+...+.+.|++++|...|+.+.+   .+..+|..+..++...|++++|...|+++.+.+ +.+...+..+..
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  102 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHH
Confidence            3444555555555555555555555555432   234455555555555555555555555555443 223444455555


Q ss_pred             HHHhcCChHHHHHHHHHhhhCCCCCCH---hHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCc
Q 044352          223 SYARRGDSNAAFAFFSRMTAEGFVPDL---VTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGS  299 (544)
Q Consensus       223 ~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  299 (544)
                      .|...|++++|...|+++.+.+ +.+.   ..+..++..+...                       .+......+...|+
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~-----------------------~~~~~a~~~~~~~~  158 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQ-----------------------RLRSQALNAFGSGD  158 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHTC
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHcCC
Confidence            5555555555555555554432 1122   3333332221000                       01122334566677


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 044352          300 IQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERM  376 (544)
Q Consensus       300 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  376 (544)
                      +++|...++.+.+.. +.+..++..++.+|.+.|++++|..+|+.+..   .+..+|..++.+|...|++++|+..++++
T Consensus       159 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  237 (450)
T 2y4t_A          159 YTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVREC  237 (450)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            777777777776654 34666777777888888888888888876653   45677888888888888888888888888


Q ss_pred             HHcCCCCCHHHHHHH------------HHHHhcCCchHHHHHHHHHHHHHhCCCCc-----hhHHHHHHHHHHhcCCHHH
Q 044352          377 LEEGMRANEVTLISV------------LSACSHGGLVEKGLEIFRSMKERYGVKIS-----KEHYACVVDMLCRSGRMVE  439 (544)
Q Consensus       377 ~~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~  439 (544)
                      .... +.+...+..+            ...+...|++++|...|+++.+.   .|+     ...+..++.++.+.|++++
T Consensus       238 ~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~~  313 (450)
T 2y4t_A          238 LKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPVE  313 (450)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHHH
T ss_pred             HHhC-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHHH
Confidence            8752 3344444443            77888899999999999999875   233     3477888899999999999


Q ss_pred             HHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHH------------HHhcC----
Q 044352          440 AYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI------------CAADG----  501 (544)
Q Consensus       440 A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~------------~~~~g----  501 (544)
                      |...++++.  .+.+..++..++.+|...|++++|+..++++++++|+++.++..++.+            |...|    
T Consensus       314 A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~  393 (450)
T 2y4t_A          314 AIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRN  393 (450)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTT
T ss_pred             HHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCcc
Confidence            999998874  455678899999999999999999999999999999999999999844            54555    


Q ss_pred             -ChHHHHHHHHH-HHhcC
Q 044352          502 -EWHEAENLRKI-MKEKN  517 (544)
Q Consensus       502 -~~~~A~~~~~~-~~~~~  517 (544)
                       +.+++.+.|++ .++..
T Consensus       394 ~~~~~~~~~y~~~~l~~~  411 (450)
T 2y4t_A          394 AKKQEIIKAYRKLALQWH  411 (450)
T ss_dssp             CCTTHHHHHHHHHHHHSC
T ss_pred             CCHHHHHHHHHHHHHHhC
Confidence             66777888876 44443

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.94  E-value=9.4e-24  Score=205.81  Aligned_cols=385  Identities=9%  Similarity=-0.038  Sum_probs=255.4

Q ss_pred             HHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhh
Q 044352           94 FQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHG  173 (544)
Q Consensus        94 ~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  173 (544)
                      ...+...+.+..... +.+...+..+...+.+.|++++|..+|+.+.+.. +.+..++..+..++...|++++|...|++
T Consensus         8 ~~~~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~   85 (450)
T 2y4t_A            8 SSGVDLGTENLYFQS-MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTK   85 (450)
T ss_dssp             ----------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccccccccccccccc-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            344555666665532 3466788999999999999999999999999875 66788999999999999999999999999


Q ss_pred             ccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCH---hhHHHHHHH------------HHhcCChHHHHH
Q 044352          174 MFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQ---FTYNAIIAS------------YARRGDSNAAFA  235 (544)
Q Consensus       174 ~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~------------~~~~~~~~~a~~  235 (544)
                      +.+   .+...+..+..++...|++++|...|+++.... +.+.   ..+..++..            +...|++++|..
T Consensus        86 al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~  164 (450)
T 2y4t_A           86 VIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIA  164 (450)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            865   457789999999999999999999999998763 2233   566666443            667777777777


Q ss_pred             HHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCC
Q 044352          236 FFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGL  315 (544)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  315 (544)
                      .|+++.+.. +.+...+..++.+|...|++++|+..|+++.+.. +.+..++..+..++...|++++|...++.+.+...
T Consensus       165 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  242 (450)
T 2y4t_A          165 FLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ  242 (450)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            777776653 4466677777777777777777777777776543 34556666677777777777777777777665532


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-----HHHHHH
Q 044352          316 HIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRAN-----EVTLIS  390 (544)
Q Consensus       316 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-----~~~~~~  390 (544)
                       .+...+..+...                   .....+..++..+...|++++|...|+++...  .|+     ...+..
T Consensus       243 -~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~  300 (450)
T 2y4t_A          243 -DHKRCFAHYKQV-------------------KKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKER  300 (450)
T ss_dssp             -TCHHHHHHHHHH-------------------HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHH
T ss_pred             -ChHHHHHHHHHH-------------------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHH
Confidence             223222222100                   00011223366667777777777777777764  333     235666


Q ss_pred             HHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCC-ChhHHHHHHH-------
Q 044352          391 VLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYV-TNSMAGAFRN-------  461 (544)
Q Consensus       391 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~-------  461 (544)
                      +..++.+.|++++|...++++.+.  .+.+...+..++.+|...|++++|...++++. ..| +...+..+..       
T Consensus       301 l~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~  378 (450)
T 2y4t_A          301 ICHCFSKDEKPVEAIRVCSEVLQM--EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQ  378 (450)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhc
Confidence            677777777777777777777653  24456677777777777777777777777653 223 3445555542       


Q ss_pred             -----HHhhcC-----ChHHHHHHHHH-HHHcCCCCch----------hHHHHHHHHHhcCChHHHH
Q 044352          462 -----GCNIHG-----RRDLAVTMGEE-FFEMGLRKPD----------GFVMLSNICAADGEWHEAE  507 (544)
Q Consensus       462 -----~~~~~g-----~~~~A~~~~~~-~~~~~p~~~~----------~~~~l~~~~~~~g~~~~A~  507 (544)
                           .|...|     +.+++.+.|++ +++..|++..          .+..++.+|...|+.+++.
T Consensus       379 ~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~r~  445 (450)
T 2y4t_A          379 SQKRDYYKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEMRK  445 (450)
T ss_dssp             HHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGGC-
T ss_pred             ccchhHHHHhCCCccCCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence                 233334     67788999987 7777776432          4555666666666665543

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

Probab=99.92  E-value=1.4e-21  Score=184.12  Aligned_cols=312  Identities=12%  Similarity=0.030  Sum_probs=165.7

Q ss_pred             hhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHH
Q 044352          179 VVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISG  258 (544)
Q Consensus       179 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  258 (544)
                      +..+..+...+...|++++|...|+++.... +.+...+..+...+...|++++|...|+++.+.. +.+...+..+..+
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~   80 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHL   80 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHH
Confidence            3445556666666666666666666665543 3345566666666666666666666666666542 3345566666666


Q ss_pred             HHcCCCHHHHHHHHHHHHHcCCCC----CHHHHHHH------------HHHhhccCchHHHHHHHHHHHHcCCCCCHHHH
Q 044352          259 FAQSKRENEALKLFKGMLVSGIKP----NNVTVTGV------------LQAGGLTGSIQIGREIHALVCRMGLHIDVFTG  322 (544)
Q Consensus       259 ~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  322 (544)
                      +...|++++|...|+++.+.  .|    +...+..+            ...+...|++++|...++.+.+.. +.+..++
T Consensus        81 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  157 (359)
T 3ieg_A           81 LLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELR  157 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHH
Confidence            66667777777777666643  23    22222222            344455555555555555555543 2344555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHH----------
Q 044352          323 SALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLI----------  389 (544)
Q Consensus       323 ~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~----------  389 (544)
                      ..+..++...|++++|...++.+..   .+...+..+...+...|++++|...+++..+.. +.+...+.          
T Consensus       158 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~  236 (359)
T 3ieg_A          158 ELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNK  236 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHHH
Confidence            5555555556666666555554432   244455555555666666666666666655531 22222221          


Q ss_pred             --HHHHHHhcCCchHHHHHHHHHHHHHhCCCCch----hHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHH
Q 044352          390 --SVLSACSHGGLVEKGLEIFRSMKERYGVKISK----EHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRN  461 (544)
Q Consensus       390 --~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~  461 (544)
                        .+...+...|++++|...++++.+. . +.+.    ..+..++.++...|++++|.+.++++.  .+.+..++..++.
T Consensus       237 ~~~~a~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~  314 (359)
T 3ieg_A          237 LIESAEELIRDGRYTDATSKYESVMKT-E-PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAE  314 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-C-CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc-C-CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence              1233455555555555555555543 1 1111    123334455555555555555555442  2234445555555


Q ss_pred             HHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          462 GCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       462 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      ++...|++++|...|+++++++|+++.++..+..+..
T Consensus       315 ~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          315 AYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            5555555555555555555555555555555544443

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

Probab=99.91  E-value=5.3e-21  Score=180.24  Aligned_cols=300  Identities=12%  Similarity=0.024  Sum_probs=253.9

Q ss_pred             CHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044352          213 NQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQ  292 (544)
Q Consensus       213 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  292 (544)
                      +...+..+...+...|++++|...|+++.+.. +.+...+..+..++...|++++|...++++.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            34567778889999999999999999998764 5568899999999999999999999999999764 446778899999


Q ss_pred             HhhccCchHHHHHHHHHHHHcCCC--CCHHHHHHH------------HHHHHhcCCHHHHHHHHHhcCC---ccHHHHHH
Q 044352          293 AGGLTGSIQIGREIHALVCRMGLH--IDVFTGSAL------------IDMYSKCGSLKDARTLFEITRI---KNVASWNA  355 (544)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l------------~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~  355 (544)
                      ++...|++++|...++.+.+....  .+...+..+            ...+...|++++|..+++.+..   .+...+..
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  159 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELREL  159 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHHHH
Confidence            999999999999999999987531  244455444            5788899999999999997663   46778999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHH----------
Q 044352          356 MIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYA----------  425 (544)
Q Consensus       356 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------  425 (544)
                      +...+...|++++|...++++... .+.+..++..+...+...|++++|...++++.+.  .+.+...+.          
T Consensus       160 ~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~  236 (359)
T 3ieg_A          160 RAECFIKEGEPRKAISDLKAASKL-KSDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNK  236 (359)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTT-CSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CccchHHHHHHHHHHHHHH
Confidence            999999999999999999999986 3557889999999999999999999999999875  233333332          


Q ss_pred             --HHHHHHHhcCCHHHHHHHHHhCC--CCCCh----hHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044352          426 --CVVDMLCRSGRMVEAYDLLRQVP--MYVTN----SMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC  497 (544)
Q Consensus       426 --~l~~~~~~~g~~~~A~~~~~~~~--~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  497 (544)
                        .++..+.+.|++++|...++++.  .+.+.    ..+..++.++...|++++|+..++++++.+|+++.++..++.++
T Consensus       237 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  316 (359)
T 3ieg_A          237 LIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAY  316 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence              33677899999999999999874  22233    23556778899999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHhcC
Q 044352          498 AADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       498 ~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ...|++++|...++++++..
T Consensus       317 ~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          317 LIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC
T ss_pred             HHcCCHHHHHHHHHHHHhcC
Confidence            99999999999999998764

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.90  E-value=2.1e-19  Score=176.51  Aligned_cols=379  Identities=12%  Similarity=0.040  Sum_probs=269.3

Q ss_pred             CHHHHHHHHHHhhC----CCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----CCCHHHHHHHHhhccC-CChhhH
Q 044352          112 NKFTFSIVLKACVG----LLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSK----CGLLCSARRVFHGMFE-RDVVSW  182 (544)
Q Consensus       112 ~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~-~~~~~~  182 (544)
                      +...+..+...+..    .+++++|...++...+.|   +...+..|...|..    .++.++|...|++..+ .+...+
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~  114 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQ  114 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            44444445544444    566666666666666543   34455556666666    6666666666666544 345555


Q ss_pred             HHHHHHHhc----cCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh----cCChHHHHHHHHHhhhCCCCCCHhHHHH
Q 044352          183 TSMISGYCN----VSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYAR----RGDSNAAFAFFSRMTAEGFVPDLVTWNA  254 (544)
Q Consensus       183 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  254 (544)
                      ..+...|..    .+++++|...|++..+.|   +...+..+...|..    .+++++|.++|++..+.|   +...+..
T Consensus       115 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~  188 (490)
T 2xm6_A          115 QNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQ  188 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            566666665    667777777777776654   34556666666665    667788888887777653   5666777


Q ss_pred             HHHHHHc----CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhc----cCchHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 044352          255 MISGFAQ----SKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGL----TGSIQIGREIHALVCRMGLHIDVFTGSALI  326 (544)
Q Consensus       255 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  326 (544)
                      +...|..    .+++++|..+|++..+.|   +......+...+..    .+++++|...++...+.+   +...+..+.
T Consensus       189 Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg  262 (490)
T 2xm6_A          189 LGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLG  262 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHH
T ss_pred             HHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            7777776    778888888888777654   34455555555554    677888888888877664   455666777


Q ss_pred             HHHHh----cCCHHHHHHHHHhcCC-ccHHHHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 044352          327 DMYSK----CGSLKDARTLFEITRI-KNVASWNAMIGCYGKH-----GMVDSSIELFERMLEEGMRANEVTLISVLSACS  396 (544)
Q Consensus       327 ~~~~~----~~~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  396 (544)
                      .+|..    .++.++|..+|+...+ .++..+..+...|...     +++++|+..|++..+.+   +...+..+...+.
T Consensus       263 ~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~  339 (490)
T 2xm6_A          263 YILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYF  339 (490)
T ss_dssp             HHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHH
Confidence            77777    7889999998887664 4566777888888877     89999999999998864   4566777777777


Q ss_pred             cCC---chHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----cCCHHHHHHHHHhCCCCCChhHHHHHHHHHhh----
Q 044352          397 HGG---LVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR----SGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNI----  465 (544)
Q Consensus       397 ~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----  465 (544)
                      ..|   ++++|.++|++..+.    .+...+..+...|..    .+++++|.+.|++.....++..+..++..|..    
T Consensus       340 ~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~  415 (490)
T 2xm6_A          340 RLGSEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGV  415 (490)
T ss_dssp             HSCCHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSS
T ss_pred             hCCCcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCC
Confidence            656   789999999999874    467788889999988    89999999999987655578888889988887    


Q ss_pred             cCChHHHHHHHHHHHHcCCC---CchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          466 HGRRDLAVTMGEEFFEMGLR---KPDGFVMLSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       466 ~g~~~~A~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      .+++++|..+|+++.+.+|+   ++.+...++.++...  .+.|.+..++..
T Consensus       416 ~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~~--~~~a~~~a~~~~  465 (490)
T 2xm6_A          416 ERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAKQ--LQQAELLSQQYI  465 (490)
T ss_dssp             CCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHHH--HHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHhH--HHHHHHHHHHHH
Confidence            89999999999999999954   777777777766543  344443333333

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

Probab=99.89  E-value=9.5e-21  Score=176.28  Aligned_cols=287  Identities=12%  Similarity=-0.011  Sum_probs=173.7

Q ss_pred             HhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044352          214 QFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQA  293 (544)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  293 (544)
                      ...+..+...+...|++++|.++|+++.+.. +.+...+..++.++...|++++|..+++++.+.. +.+...+..+...
T Consensus        22 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~   99 (330)
T 3hym_B           22 LDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCY   99 (330)
T ss_dssp             CTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHH
Confidence            3334444444444555555555555544332 2233334444444455555555555555554432 2233444444444


Q ss_pred             hhccC-chHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHH
Q 044352          294 GGLTG-SIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSS  369 (544)
Q Consensus       294 ~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A  369 (544)
                      +...| ++++|...++.+.+.. +.+...+..+..++...|++++|...++++..   .+...+..+...+...|++++|
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLA  178 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHH
Confidence            44444 4555555555544433 22344555666666666666666666655442   2344556667777777777777


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhC-------CCCchhHHHHHHHHHHhcCCHHHHHH
Q 044352          370 IELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYG-------VKISKEHYACVVDMLCRSGRMVEAYD  442 (544)
Q Consensus       370 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~A~~  442 (544)
                      ...++++... .+.+..++..+...+...|++++|...++++.+...       .+.....+..++.+|...|++++|..
T Consensus       179 ~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  257 (330)
T 3hym_B          179 ERFFSQALSI-APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALD  257 (330)
T ss_dssp             HHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHh-CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            7777777765 244566777777777777778777777777766421       13335677777778888888888888


Q ss_pred             HHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHH-HhcCChH
Q 044352          443 LLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC-AADGEWH  504 (544)
Q Consensus       443 ~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~  504 (544)
                      .++++.  .+.+...+..++.++...|++++|...++++++++|+++.++..++.++ ...|+.+
T Consensus       258 ~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          258 YHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            877763  3445667777888888888888888888888888888888888888877 3445543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.89  E-value=1.3e-18  Score=170.81  Aligned_cols=363  Identities=14%  Similarity=0.092  Sum_probs=305.2

Q ss_pred             HHHHHHHHHHcCCCCChhHHHHHHHHHHh----CCCHHHHHHHHhhccC-CChhhHHHHHHHHhc----cCChhHHHHHH
Q 044352          132 GKQVHAVATQMGFENDVSVGNALIDMYSK----CGLLCSARRVFHGMFE-RDVVSWTSMISGYCN----VSKVDEAVVLF  202 (544)
Q Consensus       132 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~  202 (544)
                      +...+....+.   .+......+...|..    .+++++|...|+...+ .+...+..+...|..    .+++++|...|
T Consensus        26 ~~~~~~~~a~~---g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~  102 (490)
T 2xm6_A           26 NLEQLKQKAES---GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWY  102 (490)
T ss_dssp             CHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHHHHC---CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            34445554443   467777888888888    8999999999998865 567788888899988    89999999999


Q ss_pred             HHHHHcCCCCCHhhHHHHHHHHHh----cCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHc----CCCHHHHHHHHHH
Q 044352          203 ERMKLEGLEPNQFTYNAIIASYAR----RGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQ----SKRENEALKLFKG  274 (544)
Q Consensus       203 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~  274 (544)
                      ++..+.|   +...+..+...|..    .+++++|..+|++..+.|   +...+..|...|..    .+++++|+++|++
T Consensus       103 ~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  176 (490)
T 2xm6_A          103 KKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSK  176 (490)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            9998765   55667778888888    789999999999998765   56778888888887    8899999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHhhc----cCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHhcC
Q 044352          275 MLVSGIKPNNVTVTGVLQAGGL----TGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSK----CGSLKDARTLFEITR  346 (544)
Q Consensus       275 ~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~  346 (544)
                      ..+.|   +...+..+...+..    .++.++|...++...+.+   +...+..+...|..    .+++++|..+|++..
T Consensus       177 a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~  250 (490)
T 2xm6_A          177 AAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSA  250 (490)
T ss_dssp             HHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH
T ss_pred             HHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            98865   56677777777776    899999999999999876   56677888888886    789999999999876


Q ss_pred             C-ccHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC-----CchHHHHHHHHHHHHHhC
Q 044352          347 I-KNVASWNAMIGCYGK----HGMVDSSIELFERMLEEGMRANEVTLISVLSACSHG-----GLVEKGLEIFRSMKERYG  416 (544)
Q Consensus       347 ~-~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~  416 (544)
                      . .++..+..+...|..    .+++++|+..|++..+.|   +...+..+...+...     +++++|...+++..+. +
T Consensus       251 ~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~-~  326 (490)
T 2xm6_A          251 EQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ-G  326 (490)
T ss_dssp             TTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT-T
T ss_pred             HCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc-C
Confidence            5 466778888888887    899999999999998764   556777777777776     8999999999999874 3


Q ss_pred             CCCchhHHHHHHHHHHhcC---CHHHHHHHHHhCCCCCChhHHHHHHHHHhh----cCChHHHHHHHHHHHHcCCCCchh
Q 044352          417 VKISKEHYACVVDMLCRSG---RMVEAYDLLRQVPMYVTNSMAGAFRNGCNI----HGRRDLAVTMGEEFFEMGLRKPDG  489 (544)
Q Consensus       417 ~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~  489 (544)
                         +...+..+...|...|   ++++|.+.|++.....++..+..++..|..    .+++++|+.+|+++.+.+  ++.+
T Consensus       327 ---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a  401 (490)
T 2xm6_A          327 ---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAA  401 (490)
T ss_dssp             ---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHH
T ss_pred             ---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHH
Confidence               5567888888888866   789999999988655678899999999988    899999999999999875  5889


Q ss_pred             HHHHHHHHHh----cCChHHHHHHHHHHHhcCC
Q 044352          490 FVMLSNICAA----DGEWHEAENLRKIMKEKNV  518 (544)
Q Consensus       490 ~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  518 (544)
                      +..|+.+|..    .+++++|...|++..+.+.
T Consensus       402 ~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          402 QVQLGEIYYYGLGVERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            9999999999    8999999999999998763

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

Probab=99.88  E-value=3.6e-20  Score=172.39  Aligned_cols=287  Identities=8%  Similarity=-0.030  Sum_probs=242.0

Q ss_pred             CCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHH
Q 044352          246 VPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSAL  325 (544)
Q Consensus       246 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  325 (544)
                      +.+...+..++..+...|++++|..+++++.+.. +.+...+..++.++...|++++|...+..+.+.. +.+..++..+
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l   96 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAV   96 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHH
Confidence            5566778888999999999999999999999764 4455667778888899999999999999999876 4467888899


Q ss_pred             HHHHHhcC-CHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCch
Q 044352          326 IDMYSKCG-SLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLV  401 (544)
Q Consensus       326 ~~~~~~~~-~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  401 (544)
                      ...+...| ++++|...|++...   .+...|..+...+...|++++|...++++.... +.+...+..+...+...|++
T Consensus        97 ~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~  175 (330)
T 3hym_B           97 GCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNS  175 (330)
T ss_dssp             HHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhH
Confidence            99999999 99999999998764   456789999999999999999999999999863 44567788899999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-----------CCCChhHHHHHHHHHhhcCChH
Q 044352          402 EKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-----------MYVTNSMAGAFRNGCNIHGRRD  470 (544)
Q Consensus       402 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----------~~~~~~~~~~l~~~~~~~g~~~  470 (544)
                      ++|...++++.+  ..+.+...+..++..+...|++++|...++++.           .+....++..++.++...|+++
T Consensus       176 ~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  253 (330)
T 3hym_B          176 KLAERFFSQALS--IAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA  253 (330)
T ss_dssp             HHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHH--hCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHH
Confidence            999999999986  345667889999999999999999999998763           1344678899999999999999


Q ss_pred             HHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCceEEEecC-e-eeccccc
Q 044352          471 LAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRN-E-FVEKEVQ  539 (544)
Q Consensus       471 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~  539 (544)
                      +|+..++++++.+|+++.++..++.++.+.|++++|...++++++..  |+....|..++. + -..|+.+
T Consensus       254 ~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          254 EALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR--RDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC--SCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC--CCchHHHHHHHHHHHHHhCchh
Confidence            99999999999999999999999999999999999999999987643  444455555544 2 3444443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.88  E-value=2.6e-18  Score=170.59  Aligned_cols=212  Identities=11%  Similarity=0.035  Sum_probs=171.5

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-------cCCHH-------HHHHHHHhcCC---c-cHHHHHHHHHHHHh
Q 044352          301 QIGREIHALVCRMGLHIDVFTGSALIDMYSK-------CGSLK-------DARTLFEITRI---K-NVASWNAMIGCYGK  362 (544)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~A~~~~~~~~~---~-~~~~~~~l~~~~~~  362 (544)
                      ..+..+|+++.... +.++.+|..++..+.+       .|+++       +|..++++...   | +...|..++..+..
T Consensus       255 ~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~  333 (530)
T 2ooe_A          255 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  333 (530)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            36677888887764 4468888888888775       68887       89999998764   3 57789999999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCC-H-HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHH-HHhcCCHHH
Q 044352          363 HGMVDSSIELFERMLEEGMRAN-E-VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDM-LCRSGRMVE  439 (544)
Q Consensus       363 ~g~~~~A~~~~~~~~~~~~~~~-~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~  439 (544)
                      .|++++|..+|+++++.  .|+ . ..|..++..+.+.|++++|..+|++..+.  .+.+...+...+.. +...|++++
T Consensus       334 ~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~  409 (530)
T 2ooe_A          334 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSV  409 (530)
T ss_dssp             TTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHHHHHHTCCHHH
T ss_pred             cCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHHHHHHcCChhH
Confidence            99999999999999984  554 3 47888888888999999999999999863  23334444433333 346899999


Q ss_pred             HHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch----hHHHHHHHHHhcCChHHHHHHHHHH
Q 044352          440 AYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD----GFVMLSNICAADGEWHEAENLRKIM  513 (544)
Q Consensus       440 A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~  513 (544)
                      |..+|+++.  .+.++..|..++..+...|+.++|+.+|+++++..|.+|.    .|..++......|+.+.+..+++++
T Consensus       410 A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~  489 (530)
T 2ooe_A          410 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  489 (530)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999864  3446788999999999999999999999999999877665    7888888888999999999999999


Q ss_pred             HhcC
Q 044352          514 KEKN  517 (544)
Q Consensus       514 ~~~~  517 (544)
                      .+.-
T Consensus       490 ~~~~  493 (530)
T 2ooe_A          490 FTAF  493 (530)
T ss_dssp             HHHT
T ss_pred             HHHC
Confidence            8754

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.87  E-value=7.7e-17  Score=165.69  Aligned_cols=419  Identities=11%  Similarity=0.054  Sum_probs=293.3

Q ss_pred             CCCCcchHHHHHHHhhccchhhhhhHHhHHHhhccc----chhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHH
Q 044352            9 NNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTNDL----NIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWM   84 (544)
Q Consensus         9 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l   84 (544)
                      ...+|+---..+.++...|.+.+|++++++++-.+.    +.. ..+.++..-.+. +.....+...+....+   ...+
T Consensus       981 e~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~-LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eI 1055 (1630)
T 1xi4_A          981 ETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRN-LQNLLILTAIKA-DRTRVMEYINRLDNYD---APDI 1055 (1630)
T ss_pred             cccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHH-HHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHH
Confidence            345666667778888899999999999999885522    333 445555554444 3333333333333222   3447


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCH
Q 044352           85 VMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLL  164 (544)
Q Consensus        85 ~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  164 (544)
                      ...+...|.+++|..+|++...     .......++.   ..+++++|.++.++.      .++.+|..+..++...|++
T Consensus      1056 A~Iai~lglyEEAf~IYkKa~~-----~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~ 1121 (1630)
T 1xi4_A         1056 ANIAISNELFEEAFAIFRKFDV-----NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMV 1121 (1630)
T ss_pred             HHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCH
Confidence            7778889999999999998632     1222233322   667888888888754      4577888999999999999


Q ss_pred             HHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044352          165 CSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEG  244 (544)
Q Consensus       165 ~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  244 (544)
                      ++|...|.+.  .|...|..++.++.+.|++++|.+.|...++..  +++...+.++.+|++.+++++...+.   .   
T Consensus      1122 kEAIdsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~--- 1191 (1630)
T 1xi4_A         1122 KEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---N--- 1191 (1630)
T ss_pred             HHHHHHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---h---
Confidence            9999999764  777888889999999999999999998877653  34333445888888888887544332   1   


Q ss_pred             CCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHH
Q 044352          245 FVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSA  324 (544)
Q Consensus       245 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  324 (544)
                       .++...|..+...|...|++++|..+|...         ..|..+..++.+.|+++.|.+.+++.      .+..+|..
T Consensus      1192 -~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWke 1255 (1630)
T 1xi4_A         1192 -GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKE 1255 (1630)
T ss_pred             -CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHH
Confidence             456677777888999999999999999874         37888888899999999999888876      35678888


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc--CCchH
Q 044352          325 LIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSH--GGLVE  402 (544)
Q Consensus       325 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~  402 (544)
                      +..+|...|++..|...... ...++..+..++..|.+.|.+++|+.+++..+... +-....|.-+...+++  .++..
T Consensus      1256 v~~acve~~Ef~LA~~cgl~-Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklm 1333 (1630)
T 1xi4_A         1256 VCFACVDGKEFRLAQMCGLH-IVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMR 1333 (1630)
T ss_pred             HHHHHhhhhHHHHHHHHHHh-hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHH
Confidence            88888888888888887765 44456667788888999999999999998877643 2334455555555544  44555


Q ss_pred             HHHHHHHHHHHHhCCCC------chhHHHHHHHHHHhcCCHHHHHHHHHhC--------------CCCCChhHHHHHHHH
Q 044352          403 KGLEIFRSMKERYGVKI------SKEHYACVVDMLCRSGRMVEAYDLLRQV--------------PMYVTNSMAGAFRNG  462 (544)
Q Consensus       403 ~a~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~--------------~~~~~~~~~~~l~~~  462 (544)
                      ++.+.|..-.   ++++      +...|..++..|.+.|+++.|....-+-              ....++..+...+..
T Consensus      1334 Ehlk~f~~ri---ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n~elyykai~F 1410 (1630)
T 1xi4_A         1334 EHLELFWSRV---NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQF 1410 (1630)
T ss_pred             HHHHHHHHhc---ccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcccccHHHHHHHHHH
Confidence            5555554322   4443      4567888888899999999887332211              134456666666666


Q ss_pred             HhhcC---------------ChHHHHHHHH
Q 044352          463 CNIHG---------------RRDLAVTMGE  477 (544)
Q Consensus       463 ~~~~g---------------~~~~A~~~~~  477 (544)
                      |....               |+++++.+++
T Consensus      1411 yl~~~P~~lndLl~~l~~rlD~~R~V~l~~ 1440 (1630)
T 1xi4_A         1411 YLEFKPLLLNDLLMVLSPRLDHTRAVNYFS 1440 (1630)
T ss_pred             HHhhChHHHHHHHHHhhhcCChHHHHHHHH
Confidence            65555               6667766666

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

Probab=99.85  E-value=4.4e-20  Score=174.67  Aligned_cols=305  Identities=11%  Similarity=-0.027  Sum_probs=207.0

Q ss_pred             HHhccCChhHHHH-HHHHHHHcCC-CC--CHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCC
Q 044352          188 GYCNVSKVDEAVV-LFERMKLEGL-EP--NQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSK  263 (544)
Q Consensus       188 ~~~~~~~~~~a~~-~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  263 (544)
                      ++...|++++|.+ .|++...... .|  +...+..+...+...|++++|...|+++.+.. +.+...+..+..++...|
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  112 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE  112 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCc
Confidence            4445566777766 6665432211 11  23445666677777777777777777776654 445666677777777777


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 044352          264 RENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFE  343 (544)
Q Consensus       264 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  343 (544)
                      ++++|...|+++++.. +.+..++..+..++...|++++|...+..+.+.... +...+..+...       ...     
T Consensus       113 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~-------~~~-----  178 (368)
T 1fch_A          113 QELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEG-------AGG-----  178 (368)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC--------------------
T ss_pred             CHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHH-------hhh-----
Confidence            7777777777776653 335556666666666667777777666666665422 11111111000       000     


Q ss_pred             hcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCch
Q 044352          344 ITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRA--NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISK  421 (544)
Q Consensus       344 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  421 (544)
                        .. ....+..+... ...|++++|...++++.... +.  +..++..+...+...|++++|...++++.+.  .+.+.
T Consensus       179 --~~-~~~~~~~~~~~-~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~  251 (368)
T 1fch_A          179 --AG-LGPSKRILGSL-LSDSLFLEVKELFLAAVRLD-PTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDY  251 (368)
T ss_dssp             ----------CTTHHH-HHHHHHHHHHHHHHHHHHHS-TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             --hc-ccHHHHHHHHH-hhcccHHHHHHHHHHHHHhC-cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCH
Confidence              00 00111122333 37889999999999998863 22  4788899999999999999999999999874  35567


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC-----------ch
Q 044352          422 EHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK-----------PD  488 (544)
Q Consensus       422 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-----------~~  488 (544)
                      ..+..++.++...|++++|...++++.  .+.+..++..++.++...|++++|...+++++++.|++           +.
T Consensus       252 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  331 (368)
T 1fch_A          252 LLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSEN  331 (368)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhH
Confidence            889999999999999999999999874  45567889999999999999999999999999999887           78


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          489 GFVMLSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       489 ~~~~l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      ++..++.+|...|++++|..++++.+
T Consensus       332 ~~~~l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          332 IWSTLRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             HHHHHHHHHHHHTCGGGHHHHHTTCH
T ss_pred             HHHHHHHHHHHhCChHhHHHhHHHHH
Confidence            99999999999999999999887544

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.85  E-value=1.1e-18  Score=171.04  Aligned_cols=390  Identities=8%  Similarity=-0.031  Sum_probs=188.8

Q ss_pred             CchhHHHHHHHHHhcCCHHHHHHHHHHHHhc-----c--ccc-CHHHHHHHHHHhhCCCChHHHHHHHHHHHHcC-----
Q 044352           77 NVFMLNWMVMASAFTGNFQEAIGYFSLMREF-----I--YRC-NKFTFSIVLKACVGLLDIKKGKQVHAVATQMG-----  143 (544)
Q Consensus        77 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~--~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----  143 (544)
                      ....||.+...+...|++++|++.|++..+.     +  ..| ...+|..+..+|...|++++|...++++.+..     
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            3556788888888888888888888876542     0  112 23456666667777777777777766665431     


Q ss_pred             -C-CCChhHHHHHHHHHHh--CCCHHHHHHHHhhccC--C-ChhhHHHHHHH---HhccCChhHHHHHHHHHHHcCCCCC
Q 044352          144 -F-ENDVSVGNALIDMYSK--CGLLCSARRVFHGMFE--R-DVVSWTSMISG---YCNVSKVDEAVVLFERMKLEGLEPN  213 (544)
Q Consensus       144 -~-~~~~~~~~~l~~~~~~--~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~  213 (544)
                       . .....++..+..++..  .+++++|...|++..+  | ++..+..+..+   +...++.++|++.+++..+.. +.+
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~  208 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDN  208 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSC
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Ccc
Confidence             0 1112333333333332  2345555555555432  1 22233322222   223344455555555544432 222


Q ss_pred             HhhHHHHHHHHHh----cCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 044352          214 QFTYNAIIASYAR----RGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTG  289 (544)
Q Consensus       214 ~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  289 (544)
                      ...+..+...+..    .+++++|.+++++..... +.+...+..+...|...|++++|...+++..+            
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~------------  275 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALE------------  275 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH------------
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHH------------
Confidence            3333333333222    233444555555444332 33344444455555555555555555555443            


Q ss_pred             HHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHH
Q 044352          290 VLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSS  369 (544)
Q Consensus       290 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  369 (544)
                                             .. +.+..++..+..+|...+....+..      .      ..........+.++.|
T Consensus       276 -----------------------~~-p~~~~~~~~lg~~y~~~~~~~~~~~------~------~~~~~~~~~~~~~~~A  319 (472)
T 4g1t_A          276 -----------------------YI-PNNAYLHCQIGCCYRAKVFQVMNLR------E------NGMYGKRKLLELIGHA  319 (472)
T ss_dssp             -----------------------HS-TTCHHHHHHHHHHHHHHHHHHHHC------------------CHHHHHHHHHHH
T ss_pred             -----------------------hC-CChHHHHHHHHHHHHHHHHHhhhHH------H------HHHHHHHHHHhhHHHH
Confidence                                   32 1133333333333322111000000      0      0000001112235567


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCch--hHHHHHHHH-HHhcCCHHHHHHHHHh
Q 044352          370 IELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISK--EHYACVVDM-LCRSGRMVEAYDLLRQ  446 (544)
Q Consensus       370 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~-~~~~g~~~~A~~~~~~  446 (544)
                      ...+++..... +.+..++..+...+...|++++|...|+++.+. ...+..  ..+..++.. +...|++++|+..|++
T Consensus       320 ~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~k  397 (472)
T 4g1t_A          320 VAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSK-ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIE  397 (472)
T ss_dssp             HHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHH
T ss_pred             HHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            77777776652 334556677777778888888888888877663 222211  122333322 3467788888888877


Q ss_pred             CC-CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCce
Q 044352          447 VP-MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFS  525 (544)
Q Consensus       447 ~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  525 (544)
                      +. ..|+.....         +....+..++++.++.+|+++.++..+|.+|...|++++|++.|+++++.+...+...+
T Consensus       398 al~i~~~~~~~~---------~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~  468 (472)
T 4g1t_A          398 GVKINQKSREKE---------KMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASS  468 (472)
T ss_dssp             HHHSCCCCHHHH---------HHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC---------------------
T ss_pred             HHhcCcccHHHH---------HHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhh
Confidence            53 344432221         22345667788899999999999999999999999999999999999998877666777


Q ss_pred             EE
Q 044352          526 RV  527 (544)
Q Consensus       526 ~~  527 (544)
                      |+
T Consensus       469 ~~  470 (472)
T 4g1t_A          469 WN  470 (472)
T ss_dssp             --
T ss_pred             cC
Confidence            74

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.85  E-value=1.2e-17  Score=165.86  Aligned_cols=215  Identities=10%  Similarity=0.006  Sum_probs=151.0

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhhc-------cCchH-------HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 044352          267 EALKLFKGMLVSGIKPNNVTVTGVLQAGGL-------TGSIQ-------IGREIHALVCRMGLHIDVFTGSALIDMYSKC  332 (544)
Q Consensus       267 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  332 (544)
                      ++..+|++.+... +.+...|......+..       .|+++       +|..++++..+.-.+.+...+..++..+.+.
T Consensus       256 ~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~  334 (530)
T 2ooe_A          256 RVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  334 (530)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            5566666666542 3345555555555543       46655       6777777776522244567777777777788


Q ss_pred             CCHHHHHHHHHhcCC--c-cH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HhcCCchHHHHHH
Q 044352          333 GSLKDARTLFEITRI--K-NV-ASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSA-CSHGGLVEKGLEI  407 (544)
Q Consensus       333 ~~~~~A~~~~~~~~~--~-~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~  407 (544)
                      |++++|..+|+++..  | +. ..|..++..+.+.|++++|..+|++..+.. +.+...+...+.. +...|++++|..+
T Consensus       335 g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~  413 (530)
T 2ooe_A          335 MKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKI  413 (530)
T ss_dssp             TCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHH
T ss_pred             CCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHH
Confidence            888888888876553  2 33 478888888888888899999999888752 2233444333322 3358899999999


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC----CCCC--hhHHHHHHHHHhhcCChHHHHHHHHHHHH
Q 044352          408 FRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP----MYVT--NSMAGAFRNGCNIHGRRDLAVTMGEEFFE  481 (544)
Q Consensus       408 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  481 (544)
                      |++..+.  .+.+...|..++..+.+.|+.++|..+|+++.    ..|+  ...|...+......|+.+.+..+++++.+
T Consensus       414 ~e~al~~--~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          414 FELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             HHHHHHH--HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHH--CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9988875  24467888888998999999999999998864    1222  33777778888889999999999999999


Q ss_pred             cCCC
Q 044352          482 MGLR  485 (544)
Q Consensus       482 ~~p~  485 (544)
                      ..|+
T Consensus       492 ~~p~  495 (530)
T 2ooe_A          492 AFRE  495 (530)
T ss_dssp             HTHH
T ss_pred             HCch
Confidence            8884

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.85  E-value=2e-16  Score=162.73  Aligned_cols=372  Identities=10%  Similarity=0.088  Sum_probs=175.4

Q ss_pred             HHHHHHhhcCCChHHHHHHhccCC-C-----CCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhh
Q 044352           51 SKLVGVYAGCGDVNSARLVFDKIP-N-----PNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACV  124 (544)
Q Consensus        51 ~~l~~~~~~~g~~~~A~~~~~~~~-~-----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~  124 (544)
                      ...+++|+..|.+.+|+++++++. .     .+....+.++....+. +..+..++.++....    +   ...+...+.
T Consensus       989 s~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~eIA~Iai 1060 (1630)
T 1xi4_A          989 SVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---APDIANIAI 1060 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HHHHHHHHH
Confidence            334445555555555555555544 1     1223333344433333 333333333333211    0   112344445


Q ss_pred             CCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHH
Q 044352          125 GLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFER  204 (544)
Q Consensus       125 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  204 (544)
                      ..|.+++|..+|++..     ......+.+   +...+++++|.++.+++  .+..+|..+..++...|++++|.+.|.+
T Consensus      1061 ~lglyEEAf~IYkKa~-----~~~~A~~VL---ie~i~nldrAiE~Aerv--n~p~vWsqLAKAql~~G~~kEAIdsYiK 1130 (1630)
T 1xi4_A         1061 SNELFEEAFAIFRKFD-----VNTSAVQVL---IEHIGNLDRAYEFAERC--NEPAVWSQLAKAQLQKGMVKEAIDSYIK 1130 (1630)
T ss_pred             hCCCHHHHHHHHHHcC-----CHHHHHHHH---HHHHhhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            5555555555555531     111111111   11445555555555544  2344555555555555666665555543


Q ss_pred             HHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCH
Q 044352          205 MKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNN  284 (544)
Q Consensus       205 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  284 (544)
                            .-|...|..++..+.+.|++++|.++|....+..  +++...+.++.+|++.++++....+.    .   .++.
T Consensus      1131 ------AdD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ 1195 (1630)
T 1xi4_A         1131 ------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNN 1195 (1630)
T ss_pred             ------cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCH
Confidence                  2344455555555555566666655555544432  22222223555555555555322221    1   2334


Q ss_pred             HHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcC
Q 044352          285 VTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHG  364 (544)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g  364 (544)
                      ..+..+...|...|++++|..+|..+         ..|..++..+.+.|+++.|.+.+++.  .+..+|..+..+|...|
T Consensus      1196 ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA--~n~~aWkev~~acve~~ 1264 (1630)
T 1xi4_A         1196 AHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGK 1264 (1630)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh--CCHHHHHHHHHHHhhhh
Confidence            44445555555555666665555542         24555555555556666665555554  33455555555555555


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh--cCCHHHHHH
Q 044352          365 MVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR--SGRMVEAYD  442 (544)
Q Consensus       365 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g~~~~A~~  442 (544)
                      ++..|......     +..++..+..++..|.+.|.+++|+.+++.....  -+-....|..+..+|.+  -++..++.+
T Consensus      1265 Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~L--eraH~gmftELaiLyaKy~peklmEhlk 1337 (1630)
T 1xi4_A         1265 EFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYSKFKPQKMREHLE 1337 (1630)
T ss_pred             HHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--ChhHhHHHHHHHHHHHhCCHHHHHHHHH
Confidence            55555554432     1223344445555566666666666666554421  12223344444444443  234444444


Q ss_pred             HHHhCC-CC------CChhHHHHHHHHHhhcCChHHHH
Q 044352          443 LLRQVP-MY------VTNSMAGAFRNGCNIHGRRDLAV  473 (544)
Q Consensus       443 ~~~~~~-~~------~~~~~~~~l~~~~~~~g~~~~A~  473 (544)
                      +|..-. .+      .+...|..+...|.+.|+++.|.
T Consensus      1338 ~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1338 LFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             HHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence            443321 11      12344555555566666666655

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

Probab=99.84  E-value=7e-19  Score=162.22  Aligned_cols=280  Identities=14%  Similarity=0.110  Sum_probs=126.0

Q ss_pred             cCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHH
Q 044352           59 GCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAV  138 (544)
Q Consensus        59 ~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  138 (544)
                      +.|++++|.+.++++..|  .+|..++.++...|++++|++.|.+.      +|..+|..++..+...|++++|...++.
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            567888888888888554  48888888888888888888888653      4667888888888888888888887777


Q ss_pred             HHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHH
Q 044352          139 ATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYN  218 (544)
Q Consensus       139 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  218 (544)
                      ..+.  .+++.+...++.+|.+.|+++++.++++.   |+..+|+.+...|...|.+++|...|..+         ..|.
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~  152 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFG  152 (449)
T ss_dssp             ------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHH
Confidence            7664  45567778888888888888888877753   66678888888888899999999888866         4788


Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccC
Q 044352          219 AIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTG  298 (544)
Q Consensus       219 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  298 (544)
                      .++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......+     ...+.-...++..|.+.|
T Consensus       153 ~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L-----~~~ad~l~~lv~~Yek~G  221 (449)
T 1b89_A          153 RLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRG  221 (449)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT-----TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHH-----HhCHhhHHHHHHHHHHCC
Confidence            8888888999999998888887      26788888888999999998885554432     223333456778888888


Q ss_pred             chHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc--CCHHHHHHHHHhcCC-c-------cHHHHHHHHHHHHhcCChHH
Q 044352          299 SIQIGREIHALVCRMGLHIDVFTGSALIDMYSKC--GSLKDARTLFEITRI-K-------NVASWNAMIGCYGKHGMVDS  368 (544)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~A~~~~~~~~~-~-------~~~~~~~l~~~~~~~g~~~~  368 (544)
                      .++++..+++...... +-...+|..+..+|++-  +++.+.++.|..-.. |       +...|..+.-.|...++++.
T Consensus       222 ~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~  300 (449)
T 1b89_A          222 YFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDN  300 (449)
T ss_dssp             CHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHH
T ss_pred             CHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHH
Confidence            9999988888887665 44567777777777663  455555555543332 2       34578899999999999998


Q ss_pred             HHHH
Q 044352          369 SIEL  372 (544)
Q Consensus       369 A~~~  372 (544)
                      |...
T Consensus       301 A~~t  304 (449)
T 1b89_A          301 AIIT  304 (449)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8764

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

Probab=99.84  E-value=2.1e-18  Score=156.19  Aligned_cols=272  Identities=9%  Similarity=-0.036  Sum_probs=201.7

Q ss_pred             HHHhcCChHHHHHHHHHhhhCCCCCCH--hHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCch
Q 044352          223 SYARRGDSNAAFAFFSRMTAEGFVPDL--VTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSI  300 (544)
Q Consensus       223 ~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  300 (544)
                      -....|+++.|+..++.....  .|+.  .....+.++|...|+++.|+..++.    ..+|+..++..+...+...++.
T Consensus         8 ~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            8 NAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcH
Confidence            344567777777776665433  2332  2444456677777777777765543    1245555666666667777777


Q ss_pred             HHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 044352          301 QIGREIHALVCRMGL-HIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEE  379 (544)
Q Consensus       301 ~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  379 (544)
                      +.|...++.+...+. +.+...+..+..++...|++++|.+.+++  ..+...+..++..+.+.|++++|...++++.+.
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  159 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ  159 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            777777777766553 33566777788899999999999999998  567788999999999999999999999999986


Q ss_pred             CCCCCHHHH---HHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChh
Q 044352          380 GMRANEVTL---ISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNS  454 (544)
Q Consensus       380 ~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~  454 (544)
                        .|+....   ...+..+...|++++|..+|+++.+.  .+.+...++.++.++.+.|++++|...++++.  .+.++.
T Consensus       160 --~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~  235 (291)
T 3mkr_A          160 --DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPE  235 (291)
T ss_dssp             --CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             --CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH
Confidence              3553311   22334445679999999999999885  56788899999999999999999999999874  455778


Q ss_pred             HHHHHHHHHhhcCChHH-HHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHH
Q 044352          455 MAGAFRNGCNIHGRRDL-AVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLR  510 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  510 (544)
                      ++..++..+...|+.++ +.++++++++++|+++.+..    ...+.+.++++..-|
T Consensus       236 ~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d----~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          236 TLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKE----YRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHH----HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHH----HHHHHHHHHHHHHHc
Confidence            89999999999999876 57899999999999887765    455555666655443

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

Probab=99.84  E-value=1.3e-19  Score=171.24  Aligned_cols=256  Identities=8%  Similarity=-0.079  Sum_probs=179.5

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 044352          252 WNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSK  331 (544)
Q Consensus       252 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  331 (544)
                      +..+...+.+.|++++|...|+++++.. +.+..++..+..++...|++++|...++++.+.. +.+..++..++.+|..
T Consensus        68 ~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  145 (365)
T 4eqf_A           68 AFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTN  145 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHc
Confidence            4444555555555555555555555432 2334445555555555555555555555555443 2245555566666666


Q ss_pred             cCCHHHHHHHHHhcCCcc-------------HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHh
Q 044352          332 CGSLKDARTLFEITRIKN-------------VASWNAMIGCYGKHGMVDSSIELFERMLEEGMRA--NEVTLISVLSACS  396 (544)
Q Consensus       332 ~~~~~~A~~~~~~~~~~~-------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~  396 (544)
                      .|++++|...++++...+             ...+..+...+...|++++|...++++.... +.  +..++..+...+.
T Consensus       146 ~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~~~  224 (365)
T 4eqf_A          146 TSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGLGVLFH  224 (365)
T ss_dssp             TTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHHHHHHH
Confidence            666666666665554311             1234455778889999999999999999863 33  6788999999999


Q ss_pred             cCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHH
Q 044352          397 HGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVT  474 (544)
Q Consensus       397 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~  474 (544)
                      ..|++++|...++++.+.  .+.+..++..++.+|...|++++|...|+++.  .+.+..++..++.+|...|++++|+.
T Consensus       225 ~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~  302 (365)
T 4eqf_A          225 LSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREAVS  302 (365)
T ss_dssp             HHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHH
Confidence            999999999999999874  45568899999999999999999999999874  44567889999999999999999999


Q ss_pred             HHHHHHHcCCC------------CchhHHHHHHHHHhcCChHHHHHHHHH
Q 044352          475 MGEEFFEMGLR------------KPDGFVMLSNICAADGEWHEAENLRKI  512 (544)
Q Consensus       475 ~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~  512 (544)
                      .|++++++.|+            +..++..++.++...|+.+.|..+.++
T Consensus       303 ~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          303 NFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            99999998876            367899999999999999999887765

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

Probab=99.82  E-value=3.3e-18  Score=157.74  Aligned_cols=376  Identities=11%  Similarity=0.042  Sum_probs=171.3

Q ss_pred             ccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHH
Q 044352           25 KSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLM  104 (544)
Q Consensus        25 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  104 (544)
                      +.|++++|.+.++++    +++. +|..++.++.+.|++++|++.|.+.  +|+..|..++..+...|++++|+..++..
T Consensus        15 ~~~~ld~A~~fae~~----~~~~-vWs~La~A~l~~g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~a   87 (449)
T 1b89_A           15 HIGNLDRAYEFAERC----NEPA-VWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMA   87 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC----CChH-HHHHHHHHHHHcCCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            678899999999988    3446 9999999999999999999999764  57779999999999999999999988877


Q ss_pred             HhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHH
Q 044352          105 REFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTS  184 (544)
Q Consensus       105 ~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  184 (544)
                      .+.  .+++.+...++.+|.+.|+++++.++++       .|+..+|..+...|...|++++|...|..+     ..|..
T Consensus        88 rk~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----~n~~~  153 (449)
T 1b89_A           88 RKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGR  153 (449)
T ss_dssp             -----------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----TCHHH
T ss_pred             HHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----hhHHH
Confidence            763  4567788999999999999999998874       467789999999999999999999999987     58999


Q ss_pred             HHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCC
Q 044352          185 MISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKR  264 (544)
Q Consensus       185 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  264 (544)
                      ++.++.+.|++++|.+.+.++      .++.+|..++.+|...|+++.|......+     ...+.....++..|.+.|+
T Consensus       154 LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L-----~~~ad~l~~lv~~Yek~G~  222 (449)
T 1b89_A          154 LASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGY  222 (449)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT-----TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHH-----HhCHhhHHHHHHHHHHCCC
Confidence            999999999999999999988      37899999999999999999996655442     3344445578899999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhc--cCchHHHHHHHHHHHHcCCCC------CHHHHHHHHHHHHhcCCHH
Q 044352          265 ENEALKLFKGMLVSGIKPNNVTVTGVLQAGGL--TGSIQIGREIHALVCRMGLHI------DVFTGSALIDMYSKCGSLK  336 (544)
Q Consensus       265 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~  336 (544)
                      +++|..+++..+... +.....|+.+..++++  .++..+..+.|...  .++++      +...|..++..|...++++
T Consensus       223 ~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~--ini~k~~~~~~~~~~w~e~~~ly~~~~e~d  299 (449)
T 1b89_A          223 FEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSR--VNIPKVLRAAEQAHLWAELVFLYDKYEEYD  299 (449)
T ss_dssp             HHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT--SCHHHHHHHHHTTTCHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHHHHHHHHHhhchHH
Confidence            999999999988543 3445556665555544  33444444444421  22222      4567888999999999999


Q ss_pred             HHHHHHHhcCC---------------ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCch
Q 044352          337 DARTLFEITRI---------------KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLV  401 (544)
Q Consensus       337 ~A~~~~~~~~~---------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  401 (544)
                      .|....-.-+.               .+...|...+..|..  ....++.-+...+...+.+     ...+..+.+.|.+
T Consensus       300 ~A~~tm~~h~~~a~~~~~f~~~~~kv~n~elyYkai~fyl~--~~p~~l~~ll~~l~~~ld~-----~r~v~~~~~~~~l  372 (449)
T 1b89_A          300 NAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLE--FKPLLLNDLLMVLSPRLDH-----TRAVNYFSKVKQL  372 (449)
T ss_dssp             HHHHHHHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHH--HCGGGHHHHHHHHGGGCCH-----HHHHHHHHHTTCT
T ss_pred             HHHHHHHhCChhhhhhHHHHHHHhchhHHHHHHHHHHHHHh--cCHHHHHHHHHHHHhccCc-----HHHHHHHHHcCCc
Confidence            98876654432               234455555555541  1222222222222211111     2233344455555


Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHh
Q 044352          402 EKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQ  446 (544)
Q Consensus       402 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  446 (544)
                      .-...++..+...    .+..+=.++-..|....+++.-..-.+.
T Consensus       373 ~l~~~yl~~v~~~----n~~~vnealn~l~ieeed~~~lr~si~~  413 (449)
T 1b89_A          373 PLVKPYLRSVQNH----NNKSVNESLNNLFITEEDYQALRTSIDA  413 (449)
T ss_dssp             TTTHHHHHHHHTT----CCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh----hHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            5555555444321    2233333444555566655554444443

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

Probab=99.82  E-value=5e-18  Score=160.46  Aligned_cols=298  Identities=11%  Similarity=0.013  Sum_probs=181.9

Q ss_pred             HHhCCCHHHHHH-HHhhccC---C----ChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCC
Q 044352          158 YSKCGLLCSARR-VFHGMFE---R----DVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGD  229 (544)
Q Consensus       158 ~~~~~~~~~A~~-~~~~~~~---~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  229 (544)
                      +...|++++|.. .+++...   .    +...+..+...+...|++++|...|+++.+.. +.+...+..+...+...|+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC
Confidence            334578888888 7776643   1    34568888899999999999999999998774 5567788889999999999


Q ss_pred             hHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHH
Q 044352          230 SNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHAL  309 (544)
Q Consensus       230 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  309 (544)
                      +++|...|+++.+.. +.+..++..+..++...|++++|...++++..... .+...+....       .....      
T Consensus       114 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~-------~~~~~------  178 (368)
T 1fch_A          114 ELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTP-AYAHLVTPAE-------EGAGG------  178 (368)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTST-TTGGGCC---------------------
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CcHHHHHHHH-------HHhhh------
Confidence            999999999988775 55788899999999999999999999999987542 2222211110       00000      


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--c---cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 044352          310 VCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI--K---NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRAN  384 (544)
Q Consensus       310 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  384 (544)
                           .. ....+..+...+ ..|++++|...++.+..  |   +..++..+...+...|++++|...++++.... +.+
T Consensus       179 -----~~-~~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~  250 (368)
T 1fch_A          179 -----AG-LGPSKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PND  250 (368)
T ss_dssp             -------------CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             -----hc-ccHHHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCC
Confidence                 00 000111111122 44555555555554432  1   34555666666666666666666666666541 334


Q ss_pred             HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCC-----------
Q 044352          385 EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYV-----------  451 (544)
Q Consensus       385 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~-----------  451 (544)
                      ..++..+...+...|++++|...++++.+.  .+.+...+..++.+|.+.|++++|...|+++.  .+.           
T Consensus       251 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  328 (368)
T 1fch_A          251 YLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAM  328 (368)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccch
Confidence            556666666666666666666666666553  23445566666666666666666666666542  111           


Q ss_pred             ChhHHHHHHHHHhhcCChHHHHHHHHHHHH
Q 044352          452 TNSMAGAFRNGCNIHGRRDLAVTMGEEFFE  481 (544)
Q Consensus       452 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  481 (544)
                      ...+|..++.++...|++++|..++++.++
T Consensus       329 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  358 (368)
T 1fch_A          329 SENIWSTLRLALSMLGQSDAYGAADARDLS  358 (368)
T ss_dssp             CHHHHHHHHHHHHHHTCGGGHHHHHTTCHH
T ss_pred             hhHHHHHHHHHHHHhCChHhHHHhHHHHHH
Confidence            145666777777777777777776665544

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

Probab=99.82  E-value=1.2e-18  Score=164.65  Aligned_cols=257  Identities=13%  Similarity=-0.044  Sum_probs=173.1

Q ss_pred             CcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHH
Q 044352           12 SVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMA   87 (544)
Q Consensus        12 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~   87 (544)
                      +...+..++..+.+.|++++|...++++++. |.+.. ++..++.++...|++++|+..|+++.   +.+..+|..+...
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~-~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAE-AWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHH-HHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            4556888888899999999999999999988 66677 88999999999999999999998876   5667788888889


Q ss_pred             HHhcCCHHHHHHHHHHHHhcccccCH-----------HHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCC--ChhHHHHH
Q 044352           88 SAFTGNFQEAIGYFSLMREFIYRCNK-----------FTFSIVLKACVGLLDIKKGKQVHAVATQMGFEN--DVSVGNAL  154 (544)
Q Consensus        88 ~~~~~~~~~A~~~~~~~~~~~~~p~~-----------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l  154 (544)
                      +...|++++|+..|+++.+..  |+.           ..+..+...+...|++++|...++++.+.. +.  +..++..+
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l  219 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGL  219 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHH
Confidence            999999999999999888742  321           122234566677777777777777777764 33  46666677


Q ss_pred             HHHHHhCCCHHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChH
Q 044352          155 IDMYSKCGLLCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSN  231 (544)
Q Consensus       155 ~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  231 (544)
                      ..+|...|++++|...|+++.+   .+..+|..+..++...|++++|...|++..+.. +.+..++..+...|...|+++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            7777777777777777766643   345566666666666777777777776666542 333556666666666666666


Q ss_pred             HHHHHHHHhhhCCC---C--------CCHhHHHHHHHHHHcCCCHHHHHHHHH
Q 044352          232 AAFAFFSRMTAEGF---V--------PDLVTWNAMISGFAQSKRENEALKLFK  273 (544)
Q Consensus       232 ~a~~~~~~~~~~~~---~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~  273 (544)
                      +|...|+++.+...   .        .+...|..+..++...|+.+.+..+..
T Consensus       299 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  351 (365)
T 4eqf_A          299 EAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANL  351 (365)
T ss_dssp             HHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            66666666554310   0        023455666666666666665555443

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

Probab=99.82  E-value=7.3e-19  Score=163.23  Aligned_cols=278  Identities=9%  Similarity=-0.053  Sum_probs=206.7

Q ss_pred             HhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044352          214 QFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQA  293 (544)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  293 (544)
                      ...+..+...+...|++++|..+|+++.+.. +.+...+..+..++...|++++|...++++.+.. +.+..++..+...
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   98 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVS   98 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHH
Confidence            3445666777778888888888888877653 4466777777788888888888888888877653 3455666667777


Q ss_pred             hhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHH-HH-HHHhcCChHHHHH
Q 044352          294 GGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAM-IG-CYGKHGMVDSSIE  371 (544)
Q Consensus       294 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l-~~-~~~~~g~~~~A~~  371 (544)
                      +...|++++|...++.+.+.... +...+..+....                  ++......+ .. .+...|++++|..
T Consensus        99 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~A~~  159 (327)
T 3cv0_A           99 HTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQAD------------------VDIDDLNVQSEDFFFAAPNEYRECRT  159 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------------------------CCTTSHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHH------------------HHHHHHHHHHHhHHHHHcccHHHHHH
Confidence            77777777777777777665422 222222211100                  000111122 22 3667788999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--C
Q 044352          372 LFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--M  449 (544)
Q Consensus       372 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~  449 (544)
                      .++++.+.. +.+..++..+...+...|++++|...++++.+.  .+.+...+..++..+...|++++|...++++.  .
T Consensus       160 ~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  236 (327)
T 3cv0_A          160 LLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN  236 (327)
T ss_dssp             HHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            999998863 457788899999999999999999999999874  35567888999999999999999999998864  4


Q ss_pred             CCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC------------CchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          450 YVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR------------KPDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       450 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      +.+..++..++.++...|++++|...++++++..|.            ++.++..++.++.+.|++++|..++++.++
T Consensus       237 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          237 PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            456788999999999999999999999999999998            788999999999999999999999876543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.81  E-value=4e-17  Score=159.86  Aligned_cols=385  Identities=7%  Similarity=-0.074  Sum_probs=219.5

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHhccCC------------CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhccc----
Q 044352           46 IFSLKSKLVGVYAGCGDVNSARLVFDKIP------------NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIY----  109 (544)
Q Consensus        46 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----  109 (544)
                      .. +++.++.++...|++++|++.|++..            +....+|+.+..+|...|++++|+..+++..+...    
T Consensus        51 a~-~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           51 AT-MCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HH-HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            44 88999999999999999999998753            23456799999999999999999999999875311    


Q ss_pred             --cc-CHHHHHHHHHHh--hCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHH---HHhCCCHHHHHHHHhhccC---CC
Q 044352          110 --RC-NKFTFSIVLKAC--VGLLDIKKGKQVHAVATQMGFENDVSVGNALIDM---YSKCGLLCSARRVFHGMFE---RD  178 (544)
Q Consensus       110 --~p-~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~A~~~~~~~~~---~~  178 (544)
                        .+ ...++.....++  ...+++++|...|++..+.. |.++..+..+..+   +...++.++|+..+++..+   .+
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~  208 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDN  208 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSC
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcc
Confidence              11 234555554444  34568999999999999885 5556666655555   4456788888888887644   34


Q ss_pred             hhhHHHHHHHHh----ccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHH
Q 044352          179 VVSWTSMISGYC----NVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNA  254 (544)
Q Consensus       179 ~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  254 (544)
                      ...+..+...+.    ..+++++|...+++..... +.+...+..+...|...|++++|...+++..+.. +.+..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHH
Confidence            555655554443    3577899999999988764 5567788889999999999999999999988763 445666776


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 044352          255 MISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGS  334 (544)
Q Consensus       255 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  334 (544)
                      +..+|...+...         .... ....      .......+..+.|...+....+.. +                  
T Consensus       287 lg~~y~~~~~~~---------~~~~-~~~~------~~~~~~~~~~~~A~~~~~~a~~~~-~------------------  331 (472)
T 4g1t_A          287 IGCCYRAKVFQV---------MNLR-ENGM------YGKRKLLELIGHAVAHLKKADEAN-D------------------  331 (472)
T ss_dssp             HHHHHHHHHHHH---------HHC-------------CHHHHHHHHHHHHHHHHHHHHHC-T------------------
T ss_pred             HHHHHHHHHHHh---------hhHH-HHHH------HHHHHHHhhHHHHHHHHHHHhhcC-C------------------
Confidence            666653211110         0000 0000      000001112334444444444332 1                  


Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH--HHHHHHH-HHhcCCchHHHHHHHHHH
Q 044352          335 LKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEV--TLISVLS-ACSHGGLVEKGLEIFRSM  411 (544)
Q Consensus       335 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~l~~-~~~~~~~~~~a~~~~~~~  411 (544)
                                   .+...+..+...+...|++++|+..|++.+.....+...  .+..+.. .....|++++|+..|.+.
T Consensus       332 -------------~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~ka  398 (472)
T 4g1t_A          332 -------------NLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEG  398 (472)
T ss_dssp             -------------TTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHH
T ss_pred             -------------chhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence                         122344455555556666666666666665532221111  1122221 233566677777777666


Q ss_pred             HHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchh
Q 044352          412 KERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDG  489 (544)
Q Consensus       412 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  489 (544)
                      .+.   .|+.......         ...+.+++++..  .+.+..++..++.+|...|++++|++.|+++++++|.+|.+
T Consensus       399 l~i---~~~~~~~~~~---------~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a  466 (472)
T 4g1t_A          399 VKI---NQKSREKEKM---------KDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSA  466 (472)
T ss_dssp             HHS---CCCCHHHHHH---------HHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-------------------
T ss_pred             Hhc---CcccHHHHHH---------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcH
Confidence            542   3332221111         122233333321  35567789999999999999999999999999999999988


Q ss_pred             HHHHH
Q 044352          490 FVMLS  494 (544)
Q Consensus       490 ~~~l~  494 (544)
                      ...+|
T Consensus       467 ~~~~G  471 (472)
T 4g1t_A          467 SSWNG  471 (472)
T ss_dssp             -----
T ss_pred             hhcCC
Confidence            87765

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

Probab=99.81  E-value=4.9e-18  Score=153.70  Aligned_cols=247  Identities=8%  Similarity=0.022  Sum_probs=203.8

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 044352          256 ISGFAQSKRENEALKLFKGMLVSGIKPNN--VTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCG  333 (544)
Q Consensus       256 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  333 (544)
                      ++-....|++..|+..++....  ..|+.  .....+.+++...|+++.|...++.    ..+|+..++..+...+...+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~--~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKP--SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCC--CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhccc--CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC
Confidence            4456678999999999887653  24443  3556678899999999999986654    23557778888999999999


Q ss_pred             CHHHHHHHHHhcC-----CccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHH
Q 044352          334 SLKDARTLFEITR-----IKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIF  408 (544)
Q Consensus       334 ~~~~A~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  408 (544)
                      +.++|.+.++.+.     ..+...+..+..++...|++++|++.+++      +.+..++..++..+.+.|++++|...+
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999998763     23567788888999999999999999987      567889999999999999999999999


Q ss_pred             HHHHHHhCCCCchhH---HHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC
Q 044352          409 RSMKERYGVKISKEH---YACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG  483 (544)
Q Consensus       409 ~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  483 (544)
                      +++.+.   .|+...   ...++..+...|++++|..+|+++.  .+.++..++.++.++...|++++|+..++++++++
T Consensus       154 ~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999875   344321   1223344455699999999999884  56678899999999999999999999999999999


Q ss_pred             CCCchhHHHHHHHHHhcCChHH-HHHHHHHHHhcC
Q 044352          484 LRKPDGFVMLSNICAADGEWHE-AENLRKIMKEKN  517 (544)
Q Consensus       484 p~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~  517 (544)
                      |+++.++..++.++...|+.++ +.++++++++..
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999987 578999988765

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

Probab=99.81  E-value=6.2e-18  Score=156.96  Aligned_cols=259  Identities=12%  Similarity=-0.004  Sum_probs=190.8

Q ss_pred             CcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHH
Q 044352           12 SVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMA   87 (544)
Q Consensus        12 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~   87 (544)
                      +...+...+..+...|++++|...++++++. |.+.. ++..++.++...|++++|...|+++.   +.+..++..+...
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   98 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREE-AWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVS   98 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHH
Confidence            5567889999999999999999999999999 66777 99999999999999999999999876   5677889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcccccCHH-HHHHH--------------HH-HhhCCCChHHHHHHHHHHHHcCCCCChhHH
Q 044352           88 SAFTGNFQEAIGYFSLMREFIYRCNKF-TFSIV--------------LK-ACVGLLDIKKGKQVHAVATQMGFENDVSVG  151 (544)
Q Consensus        88 ~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l--------------l~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  151 (544)
                      +...|++++|+..++++.+..  |+.. .+..+              .. .+...|++++|...++.+.+.. +.+..++
T Consensus        99 ~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  175 (327)
T 3cv0_A           99 HTNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLH  175 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTS--TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHH
Confidence            999999999999999998753  3322 22222              22 2667778888888888887764 4566777


Q ss_pred             HHHHHHHHhCCCHHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcC
Q 044352          152 NALIDMYSKCGLLCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRG  228 (544)
Q Consensus       152 ~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  228 (544)
                      ..+..++...|++++|...++++.+   .+...|..+...+...|++++|...|++..+.. +.+...+..+...+...|
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g  254 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMS  254 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhc
Confidence            7777777788888888777777643   345566777777777777777777777766553 334556666777777777


Q ss_pred             ChHHHHHHHHHhhhCCCCC-----------CHhHHHHHHHHHHcCCCHHHHHHHHHHH
Q 044352          229 DSNAAFAFFSRMTAEGFVP-----------DLVTWNAMISGFAQSKRENEALKLFKGM  275 (544)
Q Consensus       229 ~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~  275 (544)
                      ++++|.+.|+++.+.....           +...|..+..++...|++++|..++++.
T Consensus       255 ~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          255 QYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             CHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             cHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            7777777777765542110           3556666677777777777777666543

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

Probab=99.76  E-value=3.9e-17  Score=141.26  Aligned_cols=195  Identities=16%  Similarity=0.037  Sum_probs=157.2

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 044352          316 HIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVL  392 (544)
Q Consensus       316 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  392 (544)
                      +++...+..+...+.+.|++++|...|++...   .++..+..+..++...|++++|+..+++.++.. +.+...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            45667788888888999999999999987654   466788889999999999999999999998863 44677888888


Q ss_pred             HHHhcC-----------CchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHH
Q 044352          393 SACSHG-----------GLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAF  459 (544)
Q Consensus       393 ~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l  459 (544)
                      .++...           |++++|+..+++..+.  .|.+...+..++.+|...|++++|+..|+++.  . .++..+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~l  157 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE-DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc-cchHHHHHH
Confidence            888888           9999999999999874  34567889999999999999999999999874  4 778899999


Q ss_pred             HHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          460 RNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       460 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      +.++...|++++|+..|+++++++|+++.++..++.++...|++++|+..+++..
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999999998753

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.76  E-value=1.6e-16  Score=141.82  Aligned_cols=230  Identities=12%  Similarity=-0.006  Sum_probs=159.2

Q ss_pred             hHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044352          250 VTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMY  329 (544)
Q Consensus       250 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  329 (544)
                      ..|..+...+...|++++|+..|+++++..  .+...+..+..++...|++++|...+..+.+......           
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~-----------   72 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMR-----------   72 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT-----------
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccc-----------
Confidence            445555566666666666666666665544  4444444444444444444444444444333210000           


Q ss_pred             HhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHH
Q 044352          330 SKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFR  409 (544)
Q Consensus       330 ~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  409 (544)
                         .+..           .....|..+...+...|++++|...++++...  .|+..       .+...|++++|...++
T Consensus        73 ---~~~~-----------~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~-------~~~~~~~~~~a~~~~~  129 (258)
T 3uq3_A           73 ---ADYK-----------VISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTAD-------ILTKLRNAEKELKKAE  129 (258)
T ss_dssp             ---CCHH-----------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHH-------HHHHHHHHHHHHHHHH
T ss_pred             ---cchH-----------HHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CchhH-------HHHHHhHHHHHHHHHH
Confidence               0000           00356777777888888888888888888774  45532       3555677888888888


Q ss_pred             HHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCc
Q 044352          410 SMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKP  487 (544)
Q Consensus       410 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  487 (544)
                      ++..  ..+.+...+..++..+...|++++|...++++.  .+.+...+..++.++...|++++|+..++++++.+|+++
T Consensus       130 ~~~~--~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~  207 (258)
T 3uq3_A          130 AEAY--VNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFV  207 (258)
T ss_dssp             HHHH--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHH--cCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHH
Confidence            8876  344456778888888888999999998888864  455677888888899999999999999999999999999


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          488 DGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       488 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .++..++.++.+.|++++|...++++++..
T Consensus       208 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          208 RAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            999999999999999999999999887654

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.74  E-value=1.2e-15  Score=147.44  Aligned_cols=250  Identities=12%  Similarity=0.067  Sum_probs=131.9

Q ss_pred             HHHHHHhhccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCCh---HHHHHHhccCCCCCchhHHHHHHHHHhcC-
Q 044352           17 DCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDV---NSARLVFDKIPNPNVFMLNWMVMASAFTG-   92 (544)
Q Consensus        17 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~l~~~~~~~~-   92 (544)
                      ..+...+.+.|++++|.+.|+++.+. .+.. ++..++.+|...|+.   ++|+..|++....++.++..+...+...+ 
T Consensus         7 ~~la~~~~~~g~~~~A~~~~~~aa~~-g~~~-A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~   84 (452)
T 3e4b_A            7 QRLANEALKRGDTVTAQQNYQQLAEL-GYSE-AQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPG   84 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH-TCCT-GGGTCC----------------------------CHHHHHHHHHTC--
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHC-CCHH-HHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCC
Confidence            44677788999999999999999776 3444 667788888888888   89999999988668888888888665555 


Q ss_pred             ----CHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCCh---HHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCC--
Q 044352           93 ----NFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDI---KKGKQVHAVATQMGFENDVSVGNALIDMYSKCGL--  163 (544)
Q Consensus        93 ----~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--  163 (544)
                          ++++|+..|++..+.|..   ..+..+...|...+..   .++...+......|   ++.....+...|...+.  
T Consensus        85 ~~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~  158 (452)
T 3e4b_A           85 ATEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYD  158 (452)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGG
T ss_pred             CCCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcc
Confidence                788999999998886532   2555555555544432   33444454444443   34455556666666553  


Q ss_pred             --HHHHHHHHhhccCCChhhHHHHHHHHhccC---ChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc----CChHHHH
Q 044352          164 --LCSARRVFHGMFERDVVSWTSMISGYCNVS---KVDEAVVLFERMKLEGLEPNQFTYNAIIASYARR----GDSNAAF  234 (544)
Q Consensus       164 --~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~  234 (544)
                        .+.+..++......++..+..+...|...|   ++++|+..|++..+.| +++...+..+...|...    +++++|.
T Consensus       159 ~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~  237 (452)
T 3e4b_A          159 QHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQ  237 (452)
T ss_dssp             GGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHH
T ss_pred             cCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence              333444444444455556666666666666   6666666666665555 34444434444444433    4566666


Q ss_pred             HHHHHhhhCCCCCCHhHHHHHHHH-H--HcCCCHHHHHHHHHHHHHcC
Q 044352          235 AFFSRMTAEGFVPDLVTWNAMISG-F--AQSKRENEALKLFKGMLVSG  279 (544)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~  279 (544)
                      .+|++..    +-++..+..|... +  ...+++++|+.+|++..+.|
T Consensus       238 ~~~~~aa----~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g  281 (452)
T 3e4b_A          238 ALLEKIA----PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD  281 (452)
T ss_dssp             HHHHHHG----GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC
Confidence            6666554    2233444444444 2  33555555555555555443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.74  E-value=1.4e-16  Score=153.81  Aligned_cols=334  Identities=11%  Similarity=0.004  Sum_probs=187.5

Q ss_pred             HHHHHHHhhccCCChhhHHHHHHHHhccC-----ChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChH---HHHHH
Q 044352          165 CSARRVFHGMFERDVVSWTSMISGYCNVS-----KVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSN---AAFAF  236 (544)
Q Consensus       165 ~~A~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~---~a~~~  236 (544)
                      ++|...|++..+.++..+..+...+...+     ++++|...|++..+.|. ++  .+..+...|...+..+   ++.+.
T Consensus        55 ~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~-~~--A~~~Lg~~y~~~~~~~~~~~a~~~  131 (452)
T 3e4b_A           55 KQAEATYRAAADTSPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGE-GN--TLIPLAMLYLQYPHSFPNVNAQQQ  131 (452)
T ss_dssp             ----------------CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTC-SS--CHHHHHHHHHHCGGGCTTCCHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCC-HH--HHHHHHHHHHhCCCCCCCHHHHHH
Confidence            45555554444334444444444333332     44555555555555431 11  3344444444433222   23333


Q ss_pred             HHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccC---chHHHHHHHHHHHHc
Q 044352          237 FSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTG---SIQIGREIHALVCRM  313 (544)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~  313 (544)
                      +......|   ++..+..|...|...+.++++......+.+.-...++..+..+...+...|   +.++|...|+...+.
T Consensus       132 ~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~  208 (452)
T 3e4b_A          132 ISQWQAAG---YPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSR  208 (452)
T ss_dssp             HHHHHHHT---CTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHC
Confidence            33333322   233444455555555533333333222221111222225555555555555   666666666666666


Q ss_pred             CCCCCHHHHHHHHHHHHhc----CCHHHHHHHHHhcCCccHHHHHHHHHH-H--HhcCChHHHHHHHHHHHHcCCCCCHH
Q 044352          314 GLHIDVFTGSALIDMYSKC----GSLKDARTLFEITRIKNVASWNAMIGC-Y--GKHGMVDSSIELFERMLEEGMRANEV  386 (544)
Q Consensus       314 ~~~~~~~~~~~l~~~~~~~----~~~~~A~~~~~~~~~~~~~~~~~l~~~-~--~~~g~~~~A~~~~~~~~~~~~~~~~~  386 (544)
                      | +++...+..+..+|...    +++++|..+|+.....++..+..+... +  ...+++++|+..|++..+.|   +..
T Consensus       209 g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~  284 (452)
T 3e4b_A          209 G-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPR  284 (452)
T ss_dssp             T-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHH
T ss_pred             C-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHH
Confidence            5 23444444555555443    577788887776663355666666666 3  45788888999998888765   566


Q ss_pred             HHHHHHHHHhcCC-----chHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----cCCHHHHHHHHHhCCCCCChhHHH
Q 044352          387 TLISVLSACSHGG-----LVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR----SGRMVEAYDLLRQVPMYVTNSMAG  457 (544)
Q Consensus       387 ~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~  457 (544)
                      .+..+...|. .|     ++++|..+|++..     +.+...+..++..|..    ..++++|...|++.....++.+..
T Consensus       285 A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~  358 (452)
T 3e4b_A          285 AELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADF  358 (452)
T ss_dssp             HHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHH
T ss_pred             HHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHH
Confidence            6666776666 44     8899999888775     3466777788877776    348899999998876556677777


Q ss_pred             HHHHHHhh----cCChHHHHHHHHHHHHcCCCCchhHHHHHHHH--HhcCChHHHHHHHHHHHhc
Q 044352          458 AFRNGCNI----HGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC--AADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       458 ~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~A~~~~~~~~~~  516 (544)
                      .++..|..    ..+.++|..+|+.+.+.+++  .+...+..+.  ...++..+|..+.++..+.
T Consensus       359 ~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~--~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~~  421 (452)
T 3e4b_A          359 AIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP--EANDLATQLEAPLTPAQRAEGQRLVQQELAA  421 (452)
T ss_dssp             HHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH--HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH--HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            88777764    46899999999999988764  4444444443  3345777888887776653

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.73  E-value=1.7e-16  Score=141.75  Aligned_cols=238  Identities=8%  Similarity=-0.089  Sum_probs=171.9

Q ss_pred             HhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC--CCC----HHHH
Q 044352          214 QFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGI--KPN----NVTV  287 (544)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~  287 (544)
                      ...+..+...+...|++++|...|++..+..  .+...|..+..++...|++++|+..+.++.+...  .++    ..++
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4677888999999999999999999998886  7888999999999999999999999999886431  112    3455


Q ss_pred             HHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChH
Q 044352          288 TGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVD  367 (544)
Q Consensus       288 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  367 (544)
                      ..+..++...|++++|...++.+.+..  |+.                                      ..+...|+++
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~--------------------------------------~~~~~~~~~~  122 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA--------------------------------------DILTKLRNAE  122 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH--------------------------------------HHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC--chh--------------------------------------HHHHHHhHHH
Confidence            555556666666666666666655543  111                                      2234445566


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhC
Q 044352          368 SSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQV  447 (544)
Q Consensus       368 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  447 (544)
                      +|...++++.... +.+...+..+...+...|++++|...++++.+.  .+.+...+..++.+|...|++++|...++++
T Consensus       123 ~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  199 (258)
T 3uq3_A          123 KELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKA  199 (258)
T ss_dssp             HHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            6666666666631 224456666666777777777777777777663  3445667777777777777777777777765


Q ss_pred             C--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC------CCCchhHHHHHHH
Q 044352          448 P--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG------LRKPDGFVMLSNI  496 (544)
Q Consensus       448 ~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------p~~~~~~~~l~~~  496 (544)
                      .  .+.+...+..++.++...|++++|...++++++++      |.+..++..+..+
T Consensus       200 l~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          200 IEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHHh
Confidence            3  34457778888888999999999999999999988      8777777766543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.71  E-value=1.5e-15  Score=136.70  Aligned_cols=257  Identities=8%  Similarity=-0.070  Sum_probs=143.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHH
Q 044352          216 TYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPN--NVTVTGVLQA  293 (544)
Q Consensus       216 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~  293 (544)
                      .+......+...|++++|+..|++..+.. +.+...+..+..++...|++++|+..++++.+....++  ...+..+..+
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            44456667777778888888887777653 33455677777777777888888877777776321111  1225555566


Q ss_pred             hhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHH
Q 044352          294 GGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSI  370 (544)
Q Consensus       294 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~  370 (544)
                      +...|++++|...++.+.+.. +.+..++..+..++...|++++|...+++...   .+...|..+...+...+++++|.
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~  162 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKAD  162 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666665553 22344555555555555555555555555443   23334444442222233555555


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhcCCc---hHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhC
Q 044352          371 ELFERMLEEGMRANEVTLISVLSACSHGGL---VEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQV  447 (544)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  447 (544)
                      ..++++.+.. +.+...+..+..++...|+   +++|...++++.+.....|+.. -.                      
T Consensus       163 ~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~-~~----------------------  218 (272)
T 3u4t_A          163 SSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKY-KD----------------------  218 (272)
T ss_dssp             HHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGG-HH----------------------
T ss_pred             HHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccc-hH----------------------
Confidence            5555544431 2223333334444433333   4444444444433211111110 00                      


Q ss_pred             CCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcC
Q 044352          448 PMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG  501 (544)
Q Consensus       448 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  501 (544)
                         ....++..++..|...|++++|+..++++++++|+++.++..+..+....+
T Consensus       219 ---~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          219 ---ELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             ---HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             ---HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence               012456678888899999999999999999999999999988877765544

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.69  E-value=1.9e-14  Score=129.53  Aligned_cols=224  Identities=9%  Similarity=-0.041  Sum_probs=139.3

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhc----cCchHHHHHHHHHHHHcCCCCCHHHHH
Q 044352          248 DLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGL----TGSIQIGREIHALVCRMGLHIDVFTGS  323 (544)
Q Consensus       248 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  323 (544)
                      +...+..+...+...|++++|+..|++..+.   .+...+..+...+..    .+++++|...+++..+.+         
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---------   72 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---------   72 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---------
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---------
Confidence            4455566666666666666666666666652   122334444444444    444444444444444432         


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc--
Q 044352          324 ALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGK----HGMVDSSIELFERMLEEGMRANEVTLISVLSACSH--  397 (544)
Q Consensus       324 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  397 (544)
                                               ++..+..+...|..    .+++++|+..|++..+.+   +...+..+...|..  
T Consensus        73 -------------------------~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~  124 (273)
T 1ouv_A           73 -------------------------YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGK  124 (273)
T ss_dssp             -------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCS
T ss_pred             -------------------------CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCC
Confidence                                     34445555555555    666666666666666543   45556666666666  


Q ss_pred             --CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----cCCHHHHHHHHHhCCCCCChhHHHHHHHHHhh----cC
Q 044352          398 --GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR----SGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNI----HG  467 (544)
Q Consensus       398 --~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g  467 (544)
                        .+++++|...+++..+. +   +...+..+...|..    .+++++|...|++.....++.++..++..|..    .+
T Consensus       125 ~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~  200 (273)
T 1ouv_A          125 VVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATK  200 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCC
T ss_pred             CcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCc
Confidence              66777777777666653 2   44556666666666    67777777777665433455666677777777    77


Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHh----cCChHHHHHHHHHHHhcC
Q 044352          468 RRDLAVTMGEEFFEMGLRKPDGFVMLSNICAA----DGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       468 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  517 (544)
                      ++++|+.+++++++.+|  +.++..++.+|..    .+++++|++.|++..+.+
T Consensus       201 ~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          201 NFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            78888888888777765  6677777777777    778888888887777665

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.69  E-value=2.6e-15  Score=135.41  Aligned_cols=239  Identities=8%  Similarity=-0.105  Sum_probs=157.3

Q ss_pred             CCHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 044352          263 KRENEALKLFKGMLVSGI---KPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDAR  339 (544)
Q Consensus       263 ~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  339 (544)
                      |++++|+..|+++++...   +.+..++..+..++...|++++|...++.+.+.. +.+..++..++.++...|++++|.
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~   97 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   97 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHH
Confidence            444444444444443211   0122334444444444555555555555544443 224556666666777777777777


Q ss_pred             HHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhC
Q 044352          340 TLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYG  416 (544)
Q Consensus       340 ~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  416 (544)
                      ..|+++..   .+...+..+..++...|++++|...++++.+.  .|+.......+..+...|++++|...+.+....  
T Consensus        98 ~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--  173 (275)
T 1xnf_A           98 EAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK--  173 (275)
T ss_dssp             HHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc--
Confidence            77765553   35667788888888888888888888888875  444444444445556678999999999887764  


Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCC-----ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhH
Q 044352          417 VKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYV-----TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGF  490 (544)
Q Consensus       417 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  490 (544)
                      .+++...+ .++..+...++.++|.+.++++. ..|     +...+..++..+...|++++|...++++++.+|++...+
T Consensus       174 ~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  252 (275)
T 1xnf_A          174 SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEH  252 (275)
T ss_dssp             SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHH
T ss_pred             CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHHHH
Confidence            23343333 46677778888889999888764 222     146788899999999999999999999999999775544


Q ss_pred             HHHHHHHHhcCChHHHHHHH
Q 044352          491 VMLSNICAADGEWHEAENLR  510 (544)
Q Consensus       491 ~~l~~~~~~~g~~~~A~~~~  510 (544)
                         +.++...|++++|++.+
T Consensus       253 ---~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          253 ---RYALLELSLLGQDQDDL  269 (275)
T ss_dssp             ---HHHHHHHHHHHHC----
T ss_pred             ---HHHHHHHHHHHhhHHHH
Confidence               67888999999998876

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

Probab=99.69  E-value=7.3e-16  Score=133.21  Aligned_cols=192  Identities=13%  Similarity=-0.058  Sum_probs=142.6

Q ss_pred             CCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHH
Q 044352           10 NLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMV   85 (544)
Q Consensus        10 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~   85 (544)
                      |+++.++..+...+.+.|++++|+..++++++. |.+.. ++..++.++.+.|++++|+..|++..   |.++..+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~-a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPE-ALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence            557778999999999999999999999999999 77777 99999999999999999999999876   66777888888


Q ss_pred             HHHHhc-----------CCHHHHHHHHHHHHhccccc-CHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHH
Q 044352           86 MASAFT-----------GNFQEAIGYFSLMREFIYRC-NKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNA  153 (544)
Q Consensus        86 ~~~~~~-----------~~~~~A~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  153 (544)
                      .++...           |++++|+..|++..+.  .| +...+..+...+...|++++|...+++..+..  .+...+..
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            888888           8888888888888874  34 45667777778888888888888888888776  66777777


Q ss_pred             HHHHHHhCCCHHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 044352          154 LIDMYSKCGLLCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMK  206 (544)
Q Consensus       154 l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  206 (544)
                      +..+|...|++++|...|++..+   .+...+..+...+...|++++|...|++..
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            77778788888888777777643   345566677777777777777777776543

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

Probab=99.67  E-value=7.5e-17  Score=160.76  Aligned_cols=116  Identities=15%  Similarity=0.190  Sum_probs=99.0

Q ss_pred             hhhHHHHHHHHhccCChhHHHHHHHHHH---HcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHH
Q 044352          179 VVSWTSMISGYCNVSKVDEAVVLFERMK---LEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAM  255 (544)
Q Consensus       179 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  255 (544)
                      ..+|+++|++|++.|+.++|.++|.+|.   ..|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            3578899999999999999999987775   3478899999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCH-HHHHHHHHHHHHcCCCCCHHHHHHHHHHh
Q 044352          256 ISGFAQSKRE-NEALKLFKGMLVSGIKPNNVTVTGVLQAG  294 (544)
Q Consensus       256 ~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  294 (544)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|+.++...
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~  246 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEE  246 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChh
Confidence            9999888874 67888999999999999988888776543

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.67  E-value=3.3e-15  Score=139.64  Aligned_cols=246  Identities=8%  Similarity=-0.039  Sum_probs=177.0

Q ss_pred             cCCCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCC-hHHHHHHhccCC---CCCchh
Q 044352            6 FPINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGD-VNSARLVFDKIP---NPNVFM   80 (544)
Q Consensus         6 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~---~~~~~~   80 (544)
                      +..+|....+|..+..++...|++++|+..++++++. |.+.. ++..++.++...|+ +++|+..|+++.   +.+..+
T Consensus        90 i~~~p~~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~-a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a  168 (382)
T 2h6f_A           90 IIYSDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYT-VWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQV  168 (382)
T ss_dssp             ECCCHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             hhCChhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHH-HHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHH
Confidence            3345556678888888888889999999999999888 66666 88888888888886 999998888876   667788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 044352           81 LNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSK  160 (544)
Q Consensus        81 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  160 (544)
                      |+.+..++...|++++|+..|+++++.+. -+...|..+..++...|++++|+..++++++.. +.+...|+.+..++..
T Consensus       169 ~~~~g~~~~~~g~~~eAl~~~~kal~ldP-~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~  246 (382)
T 2h6f_A          169 WHHRRVLVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISN  246 (382)
T ss_dssp             HHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            88888888888899999999988887532 256678888888888888888888888888876 5677788888888888


Q ss_pred             -CCCHHHH-----HHHHhhccC---CChhhHHHHHHHHhccC--ChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcC-
Q 044352          161 -CGLLCSA-----RRVFHGMFE---RDVVSWTSMISGYCNVS--KVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRG-  228 (544)
Q Consensus       161 -~~~~~~A-----~~~~~~~~~---~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-  228 (544)
                       .|..++|     +..|++...   .+...|+.+...+...|  ++++|.+.+.++ +. .+.+...+..+..+|.+.| 
T Consensus       247 l~~~~~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~  324 (382)
T 2h6f_A          247 TTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLE  324 (382)
T ss_dssp             TTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHH
T ss_pred             hcCcchHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhc
Confidence             5554666     355665543   34556777777777766  567777777666 22 2344556666666666653 


Q ss_pred             --------ChHHHHHHHHHh-hhCCCCCCHhHHHHHHH
Q 044352          229 --------DSNAAFAFFSRM-TAEGFVPDLVTWNAMIS  257 (544)
Q Consensus       229 --------~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~  257 (544)
                              .+++|+++|+++ .+.+ +.....|..+..
T Consensus       325 ~~~~~~~~~~~~A~~~~~~l~~~~D-P~r~~~w~~~~~  361 (382)
T 2h6f_A          325 NQCDNKEDILNKALELCEILAKEKD-TIRKEYWRYIGR  361 (382)
T ss_dssp             TTCSSHHHHHHHHHHHHHHHHHTTC-GGGHHHHHHHHH
T ss_pred             ccccchHHHHHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence                    246777777776 4442 223334444443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.67  E-value=9.2e-15  Score=122.95  Aligned_cols=166  Identities=16%  Similarity=0.095  Sum_probs=144.8

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 044352          349 NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVV  428 (544)
Q Consensus       349 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  428 (544)
                      +..+|..+...|...|++++|++.|++.++.. +-+..++..+..++...|++++|...+..+...  .+.+...+..++
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHH
Confidence            45678888899999999999999999988863 446778888899999999999999999998774  455667788888


Q ss_pred             HHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHH
Q 044352          429 DMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEA  506 (544)
Q Consensus       429 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  506 (544)
                      ..+...++++.|.+.+.++.  .+.+...+..++.++...|++++|+..|+++++++|.++.++..+|.+|.+.|++++|
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            88999999999999988864  4556778889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcC
Q 044352          507 ENLRKIMKEKN  517 (544)
Q Consensus       507 ~~~~~~~~~~~  517 (544)
                      ++.|+++++.+
T Consensus       161 ~~~~~~al~~~  171 (184)
T 3vtx_A          161 VKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHhCC
Confidence            99999998754

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.67  E-value=4.8e-14  Score=126.87  Aligned_cols=228  Identities=9%  Similarity=-0.027  Sum_probs=167.0

Q ss_pred             CCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHc----CCCHHHHHHHHHHHHHcCCCCCHHHH
Q 044352          212 PNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQ----SKRENEALKLFKGMLVSGIKPNNVTV  287 (544)
Q Consensus       212 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  287 (544)
                      -+..++..+...+...|++++|...|++..+.   .+...+..+...|..    .+++++|+..|++..+.+   +...+
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~   77 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC   77 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            35677888899999999999999999999873   456788889999999    999999999999999875   56677


Q ss_pred             HHHHHHhhc----cCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHh-
Q 044352          288 TGVLQAGGL----TGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGK-  362 (544)
Q Consensus       288 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~-  362 (544)
                      ..+...+..    .+++++|...++...+.+   +...+..+.                               ..|.. 
T Consensus        78 ~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg-------------------------------~~~~~~  123 (273)
T 1ouv_A           78 HLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLG-------------------------------GIYHDG  123 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH-------------------------------HHHHHC
T ss_pred             HHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHH-------------------------------HHHHcC
Confidence            777777776    777777777777766553   344444444                               44444 


Q ss_pred             ---cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh--
Q 044352          363 ---HGMVDSSIELFERMLEEGMRANEVTLISVLSACSH----GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR--  433 (544)
Q Consensus       363 ---~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  433 (544)
                         .+++++|+..+++..+.+   +...+..+...+..    .+++++|...+++..+.    .+...+..+..+|..  
T Consensus       124 ~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~  196 (273)
T 1ouv_A          124 KVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGE  196 (273)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTC
T ss_pred             CCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCC
Confidence               556666666666666543   34455555666655    67777777777777653    245566677777777  


Q ss_pred             --cCCHHHHHHHHHhCCCCCChhHHHHHHHHHhh----cCChHHHHHHHHHHHHcCCCC
Q 044352          434 --SGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNI----HGRRDLAVTMGEEFFEMGLRK  486 (544)
Q Consensus       434 --~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~  486 (544)
                        .+++++|.+.|++.....+...+..++..|..    .+++++|+.+|+++++++|++
T Consensus       197 ~~~~~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~  255 (273)
T 1ouv_A          197 GATKNFKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  255 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             CCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHH
Confidence              77888888877776433346677778888887    889999999999999998853

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

Probab=99.67  E-value=3.1e-15  Score=132.11  Aligned_cols=197  Identities=11%  Similarity=0.067  Sum_probs=134.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044352          318 DVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSA  394 (544)
Q Consensus       318 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  394 (544)
                      ....+..+...+...|++++|..+|+++..   .+...+..+...+...|++++|...++++.+.. +.+..++..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            344556666667777777777777766543   345677777777778888888888888877752 4466677777777


Q ss_pred             HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHH
Q 044352          395 CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A  472 (544)
                      +...|++++|...++++.+.  .+.+...+..++..+...|++++|...++++.  .+.+...+..++..+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            88888888888888887764  34456677777888888888888888887763  344566777778888888888888


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          473 VTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +..++++++.+|.++.++..++.++...|++++|...++++++..
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            888888888888888888888888888888888888888887654

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.66  E-value=1.2e-14  Score=135.80  Aligned_cols=244  Identities=9%  Similarity=0.024  Sum_probs=142.8

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCc-hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 044352          252 WNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGS-IQIGREIHALVCRMGLHIDVFTGSALIDMYS  330 (544)
Q Consensus       252 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  330 (544)
                      |..+...+...|++++|+..+++++... +-+...+..+..++...|+ +++|...++++.+.. +.+..+|..+..++.
T Consensus       100 ~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~~  177 (382)
T 2h6f_A          100 YDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVE  177 (382)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH
Confidence            3334444444444444444444444332 1223333333334444442 444444444444433 224555555555666


Q ss_pred             hcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc-CCchHHH--
Q 044352          331 KCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSH-GGLVEKG--  404 (544)
Q Consensus       331 ~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a--  404 (544)
                      ..|++++|+..|+++..   .+...|..+..++...|++++|+..++++++.. +-+...|..+..++.. .|..++|  
T Consensus       178 ~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA~~  256 (382)
T 2h6f_A          178 WLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVL  256 (382)
T ss_dssp             HHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHH
T ss_pred             HccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHHHH
Confidence            66666666666655542   345566666677777777777777777777752 3356667777777666 4444555  


Q ss_pred             ---HHHHHHHHHHhCCCCchhHHHHHHHHHHhcC--CHHHHHHHHHhCC-CCCChhHHHHHHHHHhhcC--------C-h
Q 044352          405 ---LEIFRSMKERYGVKISKEHYACVVDMLCRSG--RMVEAYDLLRQVP-MYVTNSMAGAFRNGCNIHG--------R-R  469 (544)
Q Consensus       405 ---~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~g--------~-~  469 (544)
                         +..+++..+.  .+.+...|..+..++...|  ++++|.+.+.++. .+.+...+..++.+|...|        + +
T Consensus       257 ~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~~~~~  334 (382)
T 2h6f_A          257 EREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDIL  334 (382)
T ss_dssp             HHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHH
T ss_pred             HHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccchHHHH
Confidence               4666666653  2344566777777777766  5677777776653 2334556667777776653        2 5


Q ss_pred             HHHHHHHHHH-HHcCCCCchhHHHHHHHHHhc
Q 044352          470 DLAVTMGEEF-FEMGLRKPDGFVMLSNICAAD  500 (544)
Q Consensus       470 ~~A~~~~~~~-~~~~p~~~~~~~~l~~~~~~~  500 (544)
                      ++|+.+|+++ ++++|.....|..++..+...
T Consensus       335 ~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          335 NKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence            8888888888 888888888888887766543

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.66  E-value=2e-12  Score=129.01  Aligned_cols=433  Identities=10%  Similarity=-0.033  Sum_probs=283.5

Q ss_pred             hhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCC---HHHHHHHH
Q 044352           29 LRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGN---FQEAIGYF  101 (544)
Q Consensus        29 ~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~---~~~A~~~~  101 (544)
                      ..+-+..++..+.. |.+.. .|..++..+.+.+.++.++.+|+++.   |.....|...+..-.+.++   ++.+..+|
T Consensus        48 ~~d~i~~lE~~l~~np~d~~-~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lf  126 (679)
T 4e6h_A           48 ESDVIGKLNDMIEEQPTDIF-LYVKLLKHHVSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVL  126 (679)
T ss_dssp             CSCHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCcCCHH-HHHHHHHHHHhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHH
Confidence            44455567777777 77777 99999999888899999999999876   6777788888888888888   99999999


Q ss_pred             HHHHhcc-cccCHHHHHHHHHHhhCCCCh--------HHHHHHHHHHHH-cCC-CC-ChhHHHHHHHHHHh---------
Q 044352          102 SLMREFI-YRCNKFTFSIVLKACVGLLDI--------KKGKQVHAVATQ-MGF-EN-DVSVGNALIDMYSK---------  160 (544)
Q Consensus       102 ~~~~~~~-~~p~~~~~~~ll~~~~~~~~~--------~~a~~~~~~~~~-~~~-~~-~~~~~~~l~~~~~~---------  160 (544)
                      ++.+... ..|+...|..-+....+.++.        +.+.++|+..+. .|. .+ +..+|...+.....         
T Consensus       127 eRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~ee  206 (679)
T 4e6h_A          127 ARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEE  206 (679)
T ss_dssp             HHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHH
T ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHH
Confidence            9998753 137777777666554444332        334567776654 354 34 34677777765442         


Q ss_pred             CCCHHHHHHHHhhccCCC----hhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHH
Q 044352          161 CGLLCSARRVFHGMFERD----VVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAF  236 (544)
Q Consensus       161 ~~~~~~A~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  236 (544)
                      +++++.+..+|+++....    ...|...... .+.-+...+..++.+.                     ..+++.|...
T Consensus       207 q~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~f-e~~~~~~~a~~~~~e~---------------------~~~y~~Ar~~  264 (679)
T 4e6h_A          207 QQRVQYIRKLYKTLLCQPMDCLESMWQRYTQW-EQDVNQLTARRHIGEL---------------------SAQYMNARSL  264 (679)
T ss_dssp             HHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHH-HHHHCTTTHHHHHHHH---------------------HHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHhCccHHHHHHHHHHHHH-HHhcCcchHHHHHHHh---------------------hHHHHHHHHH
Confidence            335677788888776421    1222222111 1100111122221111                     0122223333


Q ss_pred             HHHhhhC--CC----C-----------C-----C---HhHHHHHHHHHHcCC-------CHHHHHHHHHHHHHcCCCCCH
Q 044352          237 FSRMTAE--GF----V-----------P-----D---LVTWNAMISGFAQSK-------RENEALKLFKGMLVSGIKPNN  284 (544)
Q Consensus       237 ~~~~~~~--~~----~-----------~-----~---~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~  284 (544)
                      +.++...  ++    +           |     +   ...|...+..--..+       ..+.+..+|++.+... +.+.
T Consensus       265 ~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~  343 (679)
T 4e6h_A          265 YQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAP  343 (679)
T ss_dssp             HHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCH
T ss_pred             HHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCH
Confidence            3221100  00    0           1     0   123444443322222       1344567788877652 4467


Q ss_pred             HHHHHHHHHhhccCchHHHH-HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC-------------c--
Q 044352          285 VTVTGVLQAGGLTGSIQIGR-EIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI-------------K--  348 (544)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-------------~--  348 (544)
                      ..|...+.-+...|+.+.|. .++++....- +.+...+...+....+.|+++.|..+|+.+..             |  
T Consensus       344 ~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~  422 (679)
T 4e6h_A          344 EIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTN  422 (679)
T ss_dssp             HHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcc
Confidence            77777777777888888886 8998888753 45677777788888889999999998887653             2  


Q ss_pred             ----------cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHhCC
Q 044352          349 ----------NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHG-GLVEKGLEIFRSMKERYGV  417 (544)
Q Consensus       349 ----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~  417 (544)
                                ...+|...+....+.|+.+.|..+|.++.+....+....|...+..-.+. ++.+.|..+|+...+.  +
T Consensus       423 ~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~--~  500 (679)
T 4e6h_A          423 ESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY--F  500 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH--H
T ss_pred             hhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--C
Confidence                      12368888888888899999999999998851122344555444433344 4599999999999986  3


Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCC----ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch
Q 044352          418 KISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYV----TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD  488 (544)
Q Consensus       418 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  488 (544)
                      +.+...+...+......|+.+.|..+|+++. ..|    ....|..++..-...|+.+.+..+.+++.+..|+++.
T Consensus       501 p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~~  576 (679)
T 4e6h_A          501 ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVNK  576 (679)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCCH
T ss_pred             CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcH
Confidence            4556677788888889999999999999875 223    2457888888888999999999999999999998654

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

Probab=99.66  E-value=2.4e-14  Score=124.68  Aligned_cols=198  Identities=12%  Similarity=-0.031  Sum_probs=152.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044352          318 DVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSA  394 (544)
Q Consensus       318 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  394 (544)
                      +..++..++..+...|++++|...++.+..   .+...+..+...+...|++++|...++++.... +.+..++..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            455666677777777777777777775542   345677777888888888888888888887752 4466777788888


Q ss_pred             HhcC-CchHHHHHHHHHHHHHhCCCC-chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChH
Q 044352          395 CSHG-GLVEKGLEIFRSMKERYGVKI-SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRD  470 (544)
Q Consensus       395 ~~~~-~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~  470 (544)
                      +... |++++|...++++.+. +..| +...+..++.++...|++++|...++++.  .+.+...+..++..+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALAD-PTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTS-TTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHcC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            8888 8888888888888762 2223 35677778888888888888888887763  3445677888888888889999


Q ss_pred             HHHHHHHHHHHcCC-CCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          471 LAVTMGEEFFEMGL-RKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       471 ~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +|...++++++..| .++..+..++.++...|+.++|..+++.+.+..
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            99999999888888 888888888888888899998888888887654

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.66  E-value=1.6e-14  Score=128.33  Aligned_cols=197  Identities=9%  Similarity=-0.042  Sum_probs=143.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044352          319 VFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSAC  395 (544)
Q Consensus       319 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  395 (544)
                      ...+..+...+...|++++|...|+.+..   .+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            44556666666777777777777765542   345667777777777778888888777777652 34566777777777


Q ss_pred             hcCCchHHHHHHHHHHHHHhCCCC-chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHH
Q 044352          396 SHGGLVEKGLEIFRSMKERYGVKI-SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       396 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A  472 (544)
                      ...|++++|..+++++.+. +..| +...+..++..+...|++++|.+.++++.  .+.+...+..++..+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQD-TLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTC-TTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhC-ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            7788888888888777651 2233 45667777777888888888888877753  334566777777888888888888


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          473 VTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ...++++++..|.++..+..++.++.+.|++++|.++++++.+..
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            888888888888888888888888888888888888888887654

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

Probab=99.65  E-value=5.7e-15  Score=130.44  Aligned_cols=181  Identities=12%  Similarity=0.047  Sum_probs=137.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044352          318 DVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSA  394 (544)
Q Consensus       318 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  394 (544)
                      +...+..+...+...|++++|...++.+..   .+...+..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus        56 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~  134 (243)
T 2q7f_A           56 DAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTV  134 (243)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            344555555566666666666666655442   345667777778888888888888888888763 4567778888888


Q ss_pred             HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHH
Q 044352          395 CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A  472 (544)
                      +...|++++|...++++.+.  .+.+...+..++..+...|++++|.+.++++.  .+.+..++..++.++...|++++|
T Consensus       135 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  212 (243)
T 2q7f_A          135 LVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKA  212 (243)
T ss_dssp             HHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHH
Confidence            88899999999999888774  34567788888889999999999999998764  445677888999999999999999


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHhcC
Q 044352          473 VTMGEEFFEMGLRKPDGFVMLSNICAADG  501 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  501 (544)
                      ...++++++++|+++.++..++.+....|
T Consensus       213 ~~~~~~~~~~~p~~~~~~~~~~~l~~~~~  241 (243)
T 2q7f_A          213 LEMLDKAIDIQPDHMLALHAKKLLGHHHH  241 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHTC------
T ss_pred             HHHHHHHHccCcchHHHHHHHHHHHhhcc
Confidence            99999999999999999888776654433

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.65  E-value=8.2e-14  Score=125.32  Aligned_cols=245  Identities=8%  Similarity=-0.049  Sum_probs=192.6

Q ss_pred             hhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCC--HhHHHHHH
Q 044352          179 VVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPD--LVTWNAMI  256 (544)
Q Consensus       179 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~  256 (544)
                      ...+......+...|++++|...|++..+.. +.+...+..+...+...|++++|+..+++..+.+..++  ...|..+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            4456677888999999999999999998774 34555888899999999999999999999987431222  23488899


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 044352          257 SGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLK  336 (544)
Q Consensus       257 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  336 (544)
                      .++...|++++|+..|++..+.. +.+..++..+..++...|++++|...++...+.. +.+..++..+...+...++++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999864 4466789999999999999999999999988874 446777777773444456999


Q ss_pred             HHHHHHHhcCC---ccHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHcC-CCCCH------HHHHHHHHHHhcCCchHH
Q 044352          337 DARTLFEITRI---KNVASWNAMIGCYGKHGM---VDSSIELFERMLEEG-MRANE------VTLISVLSACSHGGLVEK  403 (544)
Q Consensus       337 ~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~-~~~~~------~~~~~l~~~~~~~~~~~~  403 (544)
                      +|...|+.+.+   .+...+..+..++...|+   +++|...++++.+.. -.|+.      .++..+...+...|++++
T Consensus       160 ~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  239 (272)
T 3u4t_A          160 KADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVK  239 (272)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHH
Confidence            99999987764   356788888888888888   888999999988742 12332      467778888888999999


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHH
Q 044352          404 GLEIFRSMKERYGVKISKEHYACVV  428 (544)
Q Consensus       404 a~~~~~~~~~~~~~~~~~~~~~~l~  428 (544)
                      |.+.++++.+.  .|.+......+.
T Consensus       240 A~~~~~~al~~--~p~~~~a~~~l~  262 (272)
T 3u4t_A          240 ADAAWKNILAL--DPTNKKAIDGLK  262 (272)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHC
T ss_pred             HHHHHHHHHhc--CccHHHHHHHhh
Confidence            99999998874  233444444443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.64  E-value=8.7e-15  Score=140.13  Aligned_cols=300  Identities=13%  Similarity=0.049  Sum_probs=194.2

Q ss_pred             CCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCC----HhHHHHHHHHHHcCCCHHHHHHHHHHHHHc----CCCC
Q 044352          211 EPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPD----LVTWNAMISGFAQSKRENEALKLFKGMLVS----GIKP  282 (544)
Q Consensus       211 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~  282 (544)
                      .+....+......+...|++++|...|+++.+.+ +.+    ...+..+...+...|++++|...+++....    +..|
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            4455566777888889999999999999988763 223    356778888999999999999999887643    1112


Q ss_pred             -CHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCC-C----CHHHHHHHHHHHHhcCC--------------------HH
Q 044352          283 -NNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLH-I----DVFTGSALIDMYSKCGS--------------------LK  336 (544)
Q Consensus       283 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~--------------------~~  336 (544)
                       ...++..+...+...|++++|...+....+.... +    ...++..+...+...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence             2345666777788888888888888877654211 1    13366667777777777                    77


Q ss_pred             HHHHHHHhcCC-----c----cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhcCCchH
Q 044352          337 DARTLFEITRI-----K----NVASWNAMIGCYGKHGMVDSSIELFERMLEEGM-RAN----EVTLISVLSACSHGGLVE  402 (544)
Q Consensus       337 ~A~~~~~~~~~-----~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~  402 (544)
                      +|...++....     .    ...++..+...+...|++++|...+++...... .++    ..++..+...+...|+++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            77777665432     1    123566777777777788888777777765310 111    125666677777777777


Q ss_pred             HHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHhcCCHHHHHHHHHhCC----CCCC----hhHHHHHHHHHhhcCChH
Q 044352          403 KGLEIFRSMKERYGVKIS----KEHYACVVDMLCRSGRMVEAYDLLRQVP----MYVT----NSMAGAFRNGCNIHGRRD  470 (544)
Q Consensus       403 ~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~g~~~  470 (544)
                      +|...+++..+.....++    ..++..++..|...|++++|...++++.    ...+    ..++..++..+...|+++
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  324 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHD  324 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            777777776543111111    3456667777777777777777776652    1111    335566666777777777


Q ss_pred             HHHHHHHHHHHcCCCCc------hhHHHHHHHHHhcCChHHHHHHHH
Q 044352          471 LAVTMGEEFFEMGLRKP------DGFVMLSNICAADGEWHEAENLRK  511 (544)
Q Consensus       471 ~A~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~A~~~~~  511 (544)
                      +|...+++++++.+...      .++..++.++...|+...+...+.
T Consensus       325 ~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~  371 (406)
T 3sf4_A          325 QAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYSTNNSIM  371 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSCC-----
T ss_pred             HHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHHHHHHHH
Confidence            77777777777777663      345566666666666665544443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.64  E-value=5.5e-15  Score=141.50  Aligned_cols=292  Identities=11%  Similarity=0.009  Sum_probs=210.7

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCC----HhhHHHHHHHHHhcCChHHHHHHHHHhhhC----CCCC-C
Q 044352          178 DVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPN----QFTYNAIIASYARRGDSNAAFAFFSRMTAE----GFVP-D  248 (544)
Q Consensus       178 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~  248 (544)
                      ....+......+...|++++|...|++....+ +.+    ...+..+...+...|++++|...+++....    +..| .
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   86 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGE   86 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHH
Confidence            34456677788889999999999999988764 223    356778888999999999999999886533    2111 2


Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHhhccCc--------------------hHHH
Q 044352          249 LVTWNAMISGFAQSKRENEALKLFKGMLVSGI-KPN----NVTVTGVLQAGGLTGS--------------------IQIG  303 (544)
Q Consensus       249 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~~a  303 (544)
                      ..++..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    ++.|
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A  166 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAA  166 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHH
Confidence            45677888899999999999999998875311 111    3467777888888999                    8999


Q ss_pred             HHHHHHHHHc----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC-----cc----HHHHHHHHHHHHhcCChHHH
Q 044352          304 REIHALVCRM----GL-HIDVFTGSALIDMYSKCGSLKDARTLFEITRI-----KN----VASWNAMIGCYGKHGMVDSS  369 (544)
Q Consensus       304 ~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~g~~~~A  369 (544)
                      ...+....+.    +. +....++..+...+...|++++|...+++...     ++    ..++..+...+...|++++|
T Consensus       167 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  246 (406)
T 3sf4_A          167 VDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  246 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHH
Confidence            9888876553    11 11244677888889999999999998887653     11    23788888899999999999


Q ss_pred             HHHHHHHHHcCC-CCC----HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHhcCCHHHH
Q 044352          370 IELFERMLEEGM-RAN----EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS----KEHYACVVDMLCRSGRMVEA  440 (544)
Q Consensus       370 ~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A  440 (544)
                      ...+++...... .++    ..++..+...+...|++++|...+++..+......+    ..++..++.+|...|++++|
T Consensus       247 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  326 (406)
T 3sf4_A          247 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQA  326 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHH
Confidence            999998876310 111    457778888899999999999999988764221222    45777888899999999999


Q ss_pred             HHHHHhCC-----C--C-CChhHHHHHHHHHhhcCChH
Q 044352          441 YDLLRQVP-----M--Y-VTNSMAGAFRNGCNIHGRRD  470 (544)
Q Consensus       441 ~~~~~~~~-----~--~-~~~~~~~~l~~~~~~~g~~~  470 (544)
                      .+.+++..     .  . ....++..++..+...|+..
T Consensus       327 ~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          327 MHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence            99988753     1  1 11234455555555555544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.63  E-value=8.9e-15  Score=140.36  Aligned_cols=269  Identities=13%  Similarity=0.074  Sum_probs=162.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCH----hHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC-CCCHHHHHHH
Q 044352          216 TYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDL----VTWNAMISGFAQSKRENEALKLFKGMLVSGI-KPNNVTVTGV  290 (544)
Q Consensus       216 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l  290 (544)
                      .+..+...+...|++++|...|+++.+.+ +.+.    ..|..+..+|...|++++|...+++.++... ..+       
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~-------  121 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMND-------  121 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC-------
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccC-------
Confidence            34445556666777777777777766552 2222    3556666666677777777777666653200 000       


Q ss_pred             HHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc---------cHHHHHHHHHHHH
Q 044352          291 LQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK---------NVASWNAMIGCYG  361 (544)
Q Consensus       291 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---------~~~~~~~l~~~~~  361 (544)
                                              .+....++..+...|...|++++|...+++....         ...++..+...|.
T Consensus       122 ------------------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~  177 (411)
T 4a1s_A          122 ------------------------RLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYH  177 (411)
T ss_dssp             ------------------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             ------------------------chHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHH
Confidence                                    0112233444444555555555555554433311         1234555666666


Q ss_pred             hcCC-----------------hHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCC
Q 044352          362 KHGM-----------------VDSSIELFERMLEE----GMRA-NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKI  419 (544)
Q Consensus       362 ~~g~-----------------~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  419 (544)
                      ..|+                 +++|+..+++..+.    +..+ ...++..+...+...|++++|...+++..+.....+
T Consensus       178 ~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  257 (411)
T 4a1s_A          178 AKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFG  257 (411)
T ss_dssp             HHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             HcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcC
Confidence            6666                 66666666665432    1111 223566667777777888888777777665311111


Q ss_pred             c----hhHHHHHHHHHHhcCCHHHHHHHHHhCC----CCC----ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC-
Q 044352          420 S----KEHYACVVDMLCRSGRMVEAYDLLRQVP----MYV----TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK-  486 (544)
Q Consensus       420 ~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-  486 (544)
                      +    ...+..++.+|...|++++|.+.++++.    ...    ...++..++..+...|++++|...+++++++.+.. 
T Consensus       258 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  337 (411)
T 4a1s_A          258 DRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELG  337 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC
Confidence            1    2266677777888888888888777653    111    13466777778888888888888888888865432 


Q ss_pred             -----chhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          487 -----PDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       487 -----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                           ..++..++.+|.+.|++++|..+++++++.
T Consensus       338 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          338 DRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence                 347888888899999999999888888653

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.63  E-value=9.2e-14  Score=123.42  Aligned_cols=172  Identities=10%  Similarity=-0.035  Sum_probs=123.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHH
Q 044352          319 VFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRA-NEVTLISVLSA  394 (544)
Q Consensus       319 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~  394 (544)
                      ..++..+...+...|++++|...++++..   .+...+..+...+...|++++|...++++...+..| +...+..+...
T Consensus        71 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~  150 (252)
T 2ho1_A           71 ADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLV  150 (252)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHH
Confidence            44455555555555566666555554432   344566666777777777777777777776632233 45667777778


Q ss_pred             HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHH
Q 044352          395 CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A  472 (544)
                      +...|++++|...++++.+.  .+.+...+..++..+...|++++|...++++.  .+.+...+..++..+...|++++|
T Consensus       151 ~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A  228 (252)
T 2ho1_A          151 SLQMKKPAQAKEYFEKSLRL--NRNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTA  228 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHH
Confidence            88888888888888888764  24456778888888888888888888888763  344566778888889999999999


Q ss_pred             HHHHHHHHHcCCCCchhHHH
Q 044352          473 VTMGEEFFEMGLRKPDGFVM  492 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~~~~~~  492 (544)
                      ...++++++..|+++.....
T Consensus       229 ~~~~~~~~~~~p~~~~~~~~  248 (252)
T 2ho1_A          229 ASYGLQLKRLYPGSLEYQEF  248 (252)
T ss_dssp             HHHHHHHHHHCTTSHHHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHHH
Confidence            99999999999988776554

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.62  E-value=7.9e-12  Score=124.70  Aligned_cols=217  Identities=6%  Similarity=-0.079  Sum_probs=167.3

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH-HHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 044352          301 QIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDAR-TLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERM  376 (544)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~-~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  376 (544)
                      +.+..+|+++...- +....+|...+..+...|+.++|. .++++...   .+...|..++......|++++|.++|+++
T Consensus       326 ~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~  404 (679)
T 4e6h_A          326 ARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSC  404 (679)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            34556788777763 457888888888888899998996 99987764   35567888888888999999999999999


Q ss_pred             HHcC---------CCCC------------HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC
Q 044352          377 LEEG---------MRAN------------EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSG  435 (544)
Q Consensus       377 ~~~~---------~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  435 (544)
                      +...         -.|+            ..+|...+....+.|+.+.|..+|.++.+. ........|...+..-.+.|
T Consensus       405 l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~-~~~~~~~lyi~~A~lE~~~~  483 (679)
T 4e6h_A          405 IDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRL-KKLVTPDIYLENAYIEYHIS  483 (679)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHT-GGGSCTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHHhC
Confidence            8741         0132            236777777777889999999999999873 12223445555544444554


Q ss_pred             -CHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC---CchhHHHHHHHHHhcCChHHHHHH
Q 044352          436 -RMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR---KPDGFVMLSNICAADGEWHEAENL  509 (544)
Q Consensus       436 -~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~A~~~  509 (544)
                       +.+.|..+|+...  .+.++..|..++......|+.+.|+.+|+++++..|+   ....|..++..-.+.|+.+.+..+
T Consensus       484 ~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v  563 (679)
T 4e6h_A          484 KDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTL  563 (679)
T ss_dssp             SCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence             5899999999874  3445667778888888899999999999999998873   456788888888899999999999


Q ss_pred             HHHHHhcCCC
Q 044352          510 RKIMKEKNVQ  519 (544)
Q Consensus       510 ~~~~~~~~~~  519 (544)
                      .+++.+....
T Consensus       564 ~~R~~~~~P~  573 (679)
T 4e6h_A          564 EKRFFEKFPE  573 (679)
T ss_dssp             HHHHHHHSTT
T ss_pred             HHHHHHhCCC
Confidence            9999987543

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.62  E-value=1.3e-14  Score=134.87  Aligned_cols=270  Identities=12%  Similarity=0.088  Sum_probs=172.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCC----HhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCC-CCHHHHHHH
Q 044352          216 TYNAIIASYARRGDSNAAFAFFSRMTAEGFVPD----LVTWNAMISGFAQSKRENEALKLFKGMLVSGIK-PNNVTVTGV  290 (544)
Q Consensus       216 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l  290 (544)
                      .+......+...|++++|...|+++.+.. +.+    ...+..+...+...|++++|...+++....... ++.      
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~------   79 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQ------   79 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH------
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccccc------
Confidence            34445566677777777777777776653 222    245666777777777777777777776532100 000      


Q ss_pred             HHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC-----cc----HHHHHHHHHHHH
Q 044352          291 LQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI-----KN----VASWNAMIGCYG  361 (544)
Q Consensus       291 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~  361 (544)
                                               +....++..+...+...|++++|...+++...     .+    ..++..+...+.
T Consensus        80 -------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~  134 (338)
T 3ro2_A           80 -------------------------LGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYH  134 (338)
T ss_dssp             -------------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             -------------------------HHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHH
Confidence                                     00122334444445555555555555443321     11    224555666666


Q ss_pred             hcCC--------------------hHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhC
Q 044352          362 KHGM--------------------VDSSIELFERMLEE----GMRA-NEVTLISVLSACSHGGLVEKGLEIFRSMKERYG  416 (544)
Q Consensus       362 ~~g~--------------------~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  416 (544)
                      ..|+                    +++|...+++....    +..+ ...++..+...+...|++++|...+++..+...
T Consensus       135 ~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~  214 (338)
T 3ro2_A          135 AKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAK  214 (338)
T ss_dssp             HHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            6666                    66666666665432    1111 233566677777788888888888887765311


Q ss_pred             CCCc----hhHHHHHHHHHHhcCCHHHHHHHHHhCC----CCCC----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCC
Q 044352          417 VKIS----KEHYACVVDMLCRSGRMVEAYDLLRQVP----MYVT----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGL  484 (544)
Q Consensus       417 ~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  484 (544)
                      ..++    ...+..++..+...|++++|...+++..    ...+    ..++..++..+...|++++|...++++++..|
T Consensus       215 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  294 (338)
T 3ro2_A          215 EFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQ  294 (338)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence            1111    2367778888888899999888887753    1112    44677788889999999999999999988764


Q ss_pred             CC------chhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          485 RK------PDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       485 ~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ..      ..++..++.++.+.|++++|..+++++.+..
T Consensus       295 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          295 ELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  333 (338)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC-
T ss_pred             hcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence            33      3478889999999999999999999988753

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

Probab=99.62  E-value=6.6e-16  Score=154.11  Aligned_cols=127  Identities=15%  Similarity=0.135  Sum_probs=114.1

Q ss_pred             CCHhhHHHHHHHHHhcCChHHHHHHHHHhh---hCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 044352          212 PNQFTYNAIIASYARRGDSNAAFAFFSRMT---AEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVT  288 (544)
Q Consensus       212 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  288 (544)
                      .-..||+++|++|++.|++++|.++|++|.   ..|+.||..+||+||.+|++.|++++|.++|++|.+.|+.||..||+
T Consensus       125 ~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            345689999999999999999999998876   45889999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhccCch-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 044352          289 GVLQAGGLTGSI-QIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDA  338 (544)
Q Consensus       289 ~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  338 (544)
                      .+|.++++.|+. +.|.+++++|.+.|+.||..+|+.++....+.+-++.+
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~V  255 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV  255 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHH
Confidence            999999999985 78999999999999999999999888766654333333

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

Probab=99.61  E-value=2.2e-13  Score=118.56  Aligned_cols=208  Identities=8%  Similarity=-0.034  Sum_probs=145.6

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044352          248 DLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALID  327 (544)
Q Consensus       248 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  327 (544)
                      +...+..+...+...|++++|...++++.+.. +.                                   +...+..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~-----------------------------------~~~~~~~l~~   50 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PK-----------------------------------NELAWLVRAE   50 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT-----------------------------------CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-cc-----------------------------------chHHHHHHHH
Confidence            34555666666666666666666666665542 22                                   2334445555


Q ss_pred             HHHhcCCHHHHHHHHHhcC---CccHHHHHHHHHHHHhc-CChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCchH
Q 044352          328 MYSKCGSLKDARTLFEITR---IKNVASWNAMIGCYGKH-GMVDSSIELFERMLEEGMRA-NEVTLISVLSACSHGGLVE  402 (544)
Q Consensus       328 ~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  402 (544)
                      .+...|++++|...++.+.   ..+...+..++..+... |++++|...++++.+.+..| +...+..+..++...|+++
T Consensus        51 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  130 (225)
T 2vq2_A           51 IYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFG  130 (225)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHH
Confidence            5555555555555555443   23455666777777778 88888888888877732233 3567777888888888888


Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CC-CChhHHHHHHHHHhhcCChHHHHHHHHHH
Q 044352          403 KGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MY-VTNSMAGAFRNGCNIHGRRDLAVTMGEEF  479 (544)
Q Consensus       403 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  479 (544)
                      +|...++++.+.  .+.+...+..++.++...|++++|.++++++.  .+ .+...+..+...+...|+.++|..+++.+
T Consensus       131 ~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  208 (225)
T 2vq2_A          131 LAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQL  208 (225)
T ss_dssp             HHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            888888888764  34457778888888888899999988888763  33 45667777777888999999999999999


Q ss_pred             HHcCCCCchhHHHH
Q 044352          480 FEMGLRKPDGFVML  493 (544)
Q Consensus       480 ~~~~p~~~~~~~~l  493 (544)
                      .+.+|+++.+...+
T Consensus       209 ~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          209 QANFPYSEELQTVL  222 (225)
T ss_dssp             HHHCTTCHHHHHHH
T ss_pred             HHhCCCCHHHHHHh
Confidence            99999888776654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.60  E-value=1.3e-14  Score=141.12  Aligned_cols=208  Identities=10%  Similarity=-0.028  Sum_probs=173.5

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHH
Q 044352          300 IQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSL-KDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFER  375 (544)
Q Consensus       300 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~  375 (544)
                      ++.+...+....... +.+...+..+...+...|++ ++|...|++..+   .+...|..+..+|...|++++|...|++
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            344444555444332 34667777788888888888 888888876653   3567888899999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHhcC---------CchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhc--------CCHH
Q 044352          376 MLEEGMRANEVTLISVLSACSHG---------GLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRS--------GRMV  438 (544)
Q Consensus       376 ~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~~  438 (544)
                      .++.  .|+...+..+..++...         |++++|+..++++.+.  .+.+...|..++.+|...        |+++
T Consensus       163 al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          163 ALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            9885  57778888999999999         9999999999999874  355678899999999998        9999


Q ss_pred             HHHHHHHhCC--CC---CChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHH
Q 044352          439 EAYDLLRQVP--MY---VTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKI  512 (544)
Q Consensus       439 ~A~~~~~~~~--~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  512 (544)
                      +|.+.|+++.  .+   .+...+..++.+|...|++++|+..|+++++++|+++.++..++.++...|++++|++.+.+
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            9999999874  33   47889999999999999999999999999999999999999999999999999999976544

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.60  E-value=1.2e-13  Score=124.36  Aligned_cols=217  Identities=12%  Similarity=-0.010  Sum_probs=119.9

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHH
Q 044352          181 SWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFA  260 (544)
Q Consensus       181 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  260 (544)
                      .|..+...+...|++++|...|++..... +.+...+..+...+...|++++|...|+++.+.. +.+...+..+..++.
T Consensus        45 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~  122 (275)
T 1xnf_A           45 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALY  122 (275)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHH
Confidence            44455555555555666666665555443 3345556666666666666666666666665542 334556666666666


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 044352          261 QSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDART  340 (544)
Q Consensus       261 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  340 (544)
                      ..|++++|...|+++.+.  .|+.......+..+...|++++|...+........ ++...+ .++..+...++.++|..
T Consensus       123 ~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~a~~  198 (275)
T 1xnf_A          123 YGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD-KEQWGW-NIVEFYLGNISEQTLME  198 (275)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC-CCSTHH-HHHHHHTTSSCHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-cchHHH-HHHHHHHHhcCHHHHHH
Confidence            666666666666666654  23333333333344555666666666665555432 222222 34555566666677777


Q ss_pred             HHHhcCCcc-------HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCchHHHHHHH
Q 044352          341 LFEITRIKN-------VASWNAMIGCYGKHGMVDSSIELFERMLEEGMRA-NEVTLISVLSACSHGGLVEKGLEIF  408 (544)
Q Consensus       341 ~~~~~~~~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  408 (544)
                      .++.....+       ...|..+...+...|++++|...++++...  .| +...+   ..++...|++++|++.+
T Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~---~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          199 RLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHNFVEH---RYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTTCHHH---HHHHHHHHHHHHC----
T ss_pred             HHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CchhHHHH---HHHHHHHHHHHhhHHHH
Confidence            776665432       345666666677777777777777777664  33 22222   33444555666655544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.57  E-value=5.9e-14  Score=134.59  Aligned_cols=276  Identities=11%  Similarity=0.050  Sum_probs=186.9

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCH----hhHHHHHHHHHhcCChHHHHHHHHHhhhC----CC-CCCHh
Q 044352          180 VSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQ----FTYNAIIASYARRGDSNAAFAFFSRMTAE----GF-VPDLV  250 (544)
Q Consensus       180 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~  250 (544)
                      ..+..+...+...|++++|...|++..+.+ +.+.    ..+..+...+...|++++|...+++..+.    +. .....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            345567788899999999999999998874 2232    46788889999999999999999987643    11 22346


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHcC----C-CCCHHHHHHHHHHhhccCc-----------------hHHHHHHHH
Q 044352          251 TWNAMISGFAQSKRENEALKLFKGMLVSG----I-KPNNVTVTGVLQAGGLTGS-----------------IQIGREIHA  308 (544)
Q Consensus       251 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~  308 (544)
                      .+..+...|...|++++|...+.+..+..    . .....++..+...+...|+                 ++.|...+.
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            77888899999999999999999887531    0 1112234444444555555                 333333333


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc--cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC-
Q 044352          309 LVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK--NVASWNAMIGCYGKHGMVDSSIELFERMLEEGM-RAN-  384 (544)
Q Consensus       309 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~-  384 (544)
                      +..+                            +......+  ....+..+...+...|++++|...+++..+... .++ 
T Consensus       208 ~al~----------------------------~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  259 (411)
T 4a1s_A          208 ENLK----------------------------LMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDR  259 (411)
T ss_dssp             HHHH----------------------------HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHH----------------------------HHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCc
Confidence            3221                            11111111  123566677777778888888887777765310 011 


Q ss_pred             ---HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCC----CchhHHHHHHHHHHhcCCHHHHHHHHHhCC----CCC--
Q 044352          385 ---EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVK----ISKEHYACVVDMLCRSGRMVEAYDLLRQVP----MYV--  451 (544)
Q Consensus       385 ---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~--  451 (544)
                         ..++..+...+...|++++|...+++..+...-.    .....+..++.+|...|++++|...++++.    ...  
T Consensus       260 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  339 (411)
T 4a1s_A          260 AAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDR  339 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCh
Confidence               2266777778888888888888888776542111    114567778888888999999988888763    111  


Q ss_pred             --ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCC
Q 044352          452 --TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGL  484 (544)
Q Consensus       452 --~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  484 (544)
                        ...++..++..|...|++++|...+++++++.+
T Consensus       340 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          340 IGEARACWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence              134677788889999999999999999998876

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.57  E-value=1.8e-13  Score=114.95  Aligned_cols=167  Identities=13%  Similarity=0.022  Sum_probs=144.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044352          318 DVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSA  394 (544)
Q Consensus       318 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  394 (544)
                      ++.+|..+...|...|++++|+..|++..+   .++.+|..+..++...|++++|...+++..... +.+...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            567888889999999999999999987663   467788999999999999999999999998863 4467778888888


Q ss_pred             HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHH
Q 044352          395 CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A  472 (544)
                      +...++++.+...+.+....  .+.+...+..++.+|.+.|++++|++.|+++.  .+.+..++..++.+|...|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            99999999999999998874  45567888999999999999999999999874  456778899999999999999999


Q ss_pred             HHHHHHHHHcCCCCc
Q 044352          473 VTMGEEFFEMGLRKP  487 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~  487 (544)
                      +..|+++++++|+++
T Consensus       161 ~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          161 VKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHhCCccCH
Confidence            999999999999754

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.55  E-value=1.3e-13  Score=128.16  Aligned_cols=276  Identities=11%  Similarity=0.023  Sum_probs=181.1

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHHcCCCCC----HhhHHHHHHHHHhcCChHHHHHHHHHhhhC----CCC-CCHhH
Q 044352          181 SWTSMISGYCNVSKVDEAVVLFERMKLEGLEPN----QFTYNAIIASYARRGDSNAAFAFFSRMTAE----GFV-PDLVT  251 (544)
Q Consensus       181 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~  251 (544)
                      .+......+...|++++|...|++..+.. +.+    ...+..+...+...|++++|...+++..+.    +.. .....
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   85 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   85 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHH
Confidence            45566778889999999999999998774 223    356788889999999999999999987543    111 22557


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHhhccCc--------------------hHHHHHH
Q 044352          252 WNAMISGFAQSKRENEALKLFKGMLVSGI-KPN----NVTVTGVLQAGGLTGS--------------------IQIGREI  306 (544)
Q Consensus       252 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~  306 (544)
                      +..+...+...|++++|...+.+..+... .++    ..++..+...+...|+                    ++.|...
T Consensus        86 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~  165 (338)
T 3ro2_A           86 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDL  165 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHH
Confidence            78888999999999999999998875311 111    1244444455555555                    4444444


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc--cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CC
Q 044352          307 HALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK--NVASWNAMIGCYGKHGMVDSSIELFERMLEEGM-RA  383 (544)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~  383 (544)
                      +....+.                            .+....+  ....+..+...+...|++++|...+++..+... .+
T Consensus       166 ~~~a~~~----------------------------~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~  217 (338)
T 3ro2_A          166 YEENLSL----------------------------VTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFG  217 (338)
T ss_dssp             HHHHHHH----------------------------HHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHH----------------------------HHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcC
Confidence            3332211                            1111111  123566666677777777777777777654210 01


Q ss_pred             ----CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHhcCCHHHHHHHHHhCC----CCC
Q 044352          384 ----NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS----KEHYACVVDMLCRSGRMVEAYDLLRQVP----MYV  451 (544)
Q Consensus       384 ----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~  451 (544)
                          ...++..+...+...|++++|...+++..+......+    ...+..++..|...|++++|...++++.    ...
T Consensus       218 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~  297 (338)
T 3ro2_A          218 DKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELK  297 (338)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcC
Confidence                1225666777777888888888888777653111111    4566777788888888888888887653    111


Q ss_pred             C----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC
Q 044352          452 T----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR  485 (544)
Q Consensus       452 ~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  485 (544)
                      +    ..++..++..+...|++++|...+++++++.+.
T Consensus       298 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          298 DRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             CcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            1    346777888899999999999999999988764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.55  E-value=2e-13  Score=129.50  Aligned_cols=195  Identities=8%  Similarity=-0.041  Sum_probs=130.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhcCC-----c-----cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC----
Q 044352          320 FTGSALIDMYSKCGSLKDARTLFEITRI-----K-----NVASWNAMIGCYGKHGMVDSSIELFERMLEEGM-RAN----  384 (544)
Q Consensus       320 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~----  384 (544)
                      .++..+...|...|+++.|...+++...     +     ...+++.+...|...|++++|...+++..+... .++    
T Consensus       144 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  223 (383)
T 3ulq_A          144 EFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLM  223 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHH
Confidence            4455556666666666666665554331     1     123567777777788888888888777765310 011    


Q ss_pred             HHHHHHHHHHHhcCCchHHHHHHHHHHHHHh---CC-CCchhHHHHHHHHHHhcCCHHHHHHHHHhCC------CCCC-h
Q 044352          385 EVTLISVLSACSHGGLVEKGLEIFRSMKERY---GV-KISKEHYACVVDMLCRSGRMVEAYDLLRQVP------MYVT-N  453 (544)
Q Consensus       385 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~~-~  453 (544)
                      ..++..+..+|...|++++|...+++..+..   +. +....++..++.+|.+.|++++|...+++..      ..+. .
T Consensus       224 ~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  303 (383)
T 3ulq_A          224 GRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYL  303 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            2367777778888888888888888776521   22 3335667778888888888888888887753      1121 2


Q ss_pred             hHHHHHHHHHhhcCC---hHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          454 SMAGAFRNGCNIHGR---RDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       454 ~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      ..+..+...+...|+   +++|+.++++. ...|....++..++.+|...|++++|..+++++.+
T Consensus       304 ~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          304 SEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            234566777888888   77777777765 22344556788899999999999999999998875

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.55  E-value=2e-13  Score=137.85  Aligned_cols=164  Identities=12%  Similarity=0.125  Sum_probs=145.6

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 044352          349 NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVV  428 (544)
Q Consensus       349 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  428 (544)
                      +..+|+.+...+...|++++|++.|++.++.. +-+..++..+..++.+.|++++|+..|+++.+.  .+.+...|..++
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg   84 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            45678889999999999999999999998862 346778899999999999999999999999874  345578899999


Q ss_pred             HHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHH
Q 044352          429 DMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEA  506 (544)
Q Consensus       429 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  506 (544)
                      .+|...|++++|++.|+++.  .+.+..++..++.+|...|++++|+..|+++++++|+++.++..++.+|...|++++|
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHH
Confidence            99999999999999998874  4556789999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHh
Q 044352          507 ENLRKIMKE  515 (544)
Q Consensus       507 ~~~~~~~~~  515 (544)
                      .+.++++++
T Consensus       165 ~~~~~kal~  173 (723)
T 4gyw_A          165 DERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998875

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.54  E-value=1.2e-12  Score=124.02  Aligned_cols=164  Identities=12%  Similarity=0.080  Sum_probs=124.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhcCC-----cc----HHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CCCH
Q 044352          320 FTGSALIDMYSKCGSLKDARTLFEITRI-----KN----VASWNAMIGCYGKHGMVDSSIELFERMLEE----GM-RANE  385 (544)
Q Consensus       320 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~  385 (544)
                      .++..+..+|...|++++|...+++...     .+    ..++..+..+|...|++++|+..+++..+.    +. +...
T Consensus       185 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  264 (383)
T 3ulq_A          185 QCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLP  264 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHH
Confidence            4566677777788888888777765542     11    236788888999999999999999998772    23 3345


Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHHHHh---CCCCchhHHHHHHHHHHhcCC---HHHHHHHHHhCCCCCC-hhHHHH
Q 044352          386 VTLISVLSACSHGGLVEKGLEIFRSMKERY---GVKISKEHYACVVDMLCRSGR---MVEAYDLLRQVPMYVT-NSMAGA  458 (544)
Q Consensus       386 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~-~~~~~~  458 (544)
                      .++..+..++...|++++|...+++..+..   +.+.....+..+...|...|+   +++|..++++....++ ...+..
T Consensus       265 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~  344 (383)
T 3ulq_A          265 QAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAID  344 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            678888999999999999999999886642   122223335667888889998   8999999998864433 346778


Q ss_pred             HHHHHhhcCChHHHHHHHHHHHHcC
Q 044352          459 FRNGCNIHGRRDLAVTMGEEFFEMG  483 (544)
Q Consensus       459 l~~~~~~~g~~~~A~~~~~~~~~~~  483 (544)
                      ++..|...|++++|...+++++++.
T Consensus       345 la~~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          345 VAKYYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            8889999999999999999998865

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.52  E-value=4e-13  Score=112.85  Aligned_cols=163  Identities=13%  Similarity=0.028  Sum_probs=117.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDML  431 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  431 (544)
                      .+..+...+...|++++|...++++... .+.+..++..+...+...|++++|...++++.+.  .+.+...+..++..+
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~   86 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDA-DAFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCT-TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh-CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHH
Confidence            3444555555666666666666665543 1334555666666666666677777666666653  234556666667777


Q ss_pred             HhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHH
Q 044352          432 CRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENL  509 (544)
Q Consensus       432 ~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  509 (544)
                      ...|++++|.+.++++.  .+.+...+..++..+...|++++|...++++++..|.++.++..++.++...|++++|..+
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  166 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPH  166 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHH
Confidence            77777777777776653  3445667778888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcC
Q 044352          510 RKIMKEKN  517 (544)
Q Consensus       510 ~~~~~~~~  517 (544)
                      ++++.+..
T Consensus       167 ~~~~~~~~  174 (186)
T 3as5_A          167 FKKANELD  174 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHcC
Confidence            99988654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.52  E-value=4.3e-12  Score=116.15  Aligned_cols=219  Identities=10%  Similarity=0.003  Sum_probs=135.0

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHhh-------ccCch-------HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 044352          266 NEALKLFKGMLVSGIKPNNVTVTGVLQAGG-------LTGSI-------QIGREIHALVCRMGLHIDVFTGSALIDMYSK  331 (544)
Q Consensus       266 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  331 (544)
                      ++|..+|++++... +.+...|..++..+.       ..|++       ++|..++++..+.-.+.+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            45555555555432 233344444444332       23443       5666666666652113345566666777777


Q ss_pred             cCCHHHHHHHHHhcCC--c-cHH-HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh-cCCchHHHHH
Q 044352          332 CGSLKDARTLFEITRI--K-NVA-SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACS-HGGLVEKGLE  406 (544)
Q Consensus       332 ~~~~~~A~~~~~~~~~--~-~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~  406 (544)
                      .|++++|..+|+++..  | +.. .|..++..+.+.|++++|..+|++.++.. +++...|...+.... ..|++++|..
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            7777777777766553  2 233 67777777777777777777777777652 334444443333322 3577888888


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCC----CC--ChhHHHHHHHHHhhcCChHHHHHHHHHHH
Q 044352          407 IFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPM----YV--TNSMAGAFRNGCNIHGRRDLAVTMGEEFF  480 (544)
Q Consensus       407 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  480 (544)
                      +|++..+.  .+.+...|..++..+.+.|++++|..+|+++..    +|  ....|..++..+...|+.++|..++++++
T Consensus       191 ~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          191 IFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            88777764  234566777777777777788888777777631    33  24467777777777788888888888888


Q ss_pred             HcCCCCch
Q 044352          481 EMGLRKPD  488 (544)
Q Consensus       481 ~~~p~~~~  488 (544)
                      +..|+++.
T Consensus       269 ~~~p~~~~  276 (308)
T 2ond_A          269 TAFREEYE  276 (308)
T ss_dssp             HHTTTTTS
T ss_pred             HHcccccc
Confidence            87776553

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.52  E-value=8.6e-14  Score=127.84  Aligned_cols=238  Identities=13%  Similarity=0.060  Sum_probs=130.0

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHHc-------CCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHc------C
Q 044352          248 DLVTWNAMISGFAQSKRENEALKLFKGMLVS-------GIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRM------G  314 (544)
Q Consensus       248 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~  314 (544)
                      +..++..+...+...|++++|..+++++.+.       ..+....++..+...+...|++++|...+..+.+.      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            3566777888888888888888888888753       11222334555555555566666666655554432      1


Q ss_pred             C-CCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCC-CHH
Q 044352          315 L-HIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEE------GMRA-NEV  386 (544)
Q Consensus       315 ~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~~~-~~~  386 (544)
                      . +...                               .++..+...+...|++++|...++++.+.      +..| ...
T Consensus       106 ~~~~~~-------------------------------~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  154 (311)
T 3nf1_A          106 DHPAVA-------------------------------ATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAK  154 (311)
T ss_dssp             TCHHHH-------------------------------HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CChHHH-------------------------------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHH
Confidence            0 1112                               24444555555555555555555555442      1112 233


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHh------CCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC----------CC
Q 044352          387 TLISVLSACSHGGLVEKGLEIFRSMKERY------GVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP----------MY  450 (544)
Q Consensus       387 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----------~~  450 (544)
                      ++..+...+...|++++|..+++++.+..      ..+.....+..++.+|...|++++|.+.++++.          ..
T Consensus       155 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  234 (311)
T 3nf1_A          155 QLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVD  234 (311)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCC
Confidence            45555556666666666666666654421      011223445556666666666666666665542          00


Q ss_pred             C-Ch------hHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          451 V-TN------SMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       451 ~-~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      + ..      ..+......+...+.+.+|...++++....|.++.++..++.+|.+.|++++|+++++++++.
T Consensus       235 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          235 DENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             ---CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            1 11      112222233445667777888888888888888888999999999999999999999888753

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.51  E-value=1.7e-12  Score=118.77  Aligned_cols=214  Identities=12%  Similarity=0.032  Sum_probs=115.4

Q ss_pred             hhhhHHhHHHhhc-ccchhhHHHHHHHHhhc-------CCCh-------HHHHHHhccCC----CCCchhHHHHHHHHHh
Q 044352           30 RQGKQVHALLCTN-DLNIFSLKSKLVGVYAG-------CGDV-------NSARLVFDKIP----NPNVFMLNWMVMASAF   90 (544)
Q Consensus        30 ~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~-------~g~~-------~~A~~~~~~~~----~~~~~~~~~l~~~~~~   90 (544)
                      ++|...|+++++. |.++. +|..++..+..       .|++       ++|+..|++..    +.+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~p~~~~-~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGHHPD-IWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHH-HHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCHH-HHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            5677778888777 66666 77777777653       3554       56666666543    2334456666666666


Q ss_pred             cCCHHHHHHHHHHHHhcccccC-HH-HHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHH
Q 044352           91 TGNFQEAIGYFSLMREFIYRCN-KF-TFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSAR  168 (544)
Q Consensus        91 ~~~~~~A~~~~~~~~~~~~~p~-~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  168 (544)
                      .|++++|..+|+++++  +.|+ .. .|..+...+.+.|++++|..+|++..+.+ +.+...|...+....         
T Consensus       112 ~~~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~---------  179 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEY---------  179 (308)
T ss_dssp             TTCHHHHHHHHHHHHT--SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHH---------
T ss_pred             cCCHHHHHHHHHHHHh--ccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH---------
Confidence            6666666666666665  3333 22 45555555555566666666666555543 222333322221111         


Q ss_pred             HHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCC-CCC
Q 044352          169 RVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEG-FVP  247 (544)
Q Consensus       169 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~  247 (544)
                                           ...|++++|..+|++..+.. +.+...|..++..+.+.|++++|..+|++..... +.|
T Consensus       180 ---------------------~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p  237 (308)
T 2ond_A          180 ---------------------YCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             ---------------------HTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             ---------------------HHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCH
Confidence                                 11355555555555554432 2234455555555555566666666666555532 232


Q ss_pred             --CHhHHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 044352          248 --DLVTWNAMISGFAQSKRENEALKLFKGMLVS  278 (544)
Q Consensus       248 --~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  278 (544)
                        ....|..++..+.+.|+.+.|..+++++.+.
T Consensus       238 ~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          238 EKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence              2345555555555566666666666665543

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.50  E-value=1.1e-12  Score=114.35  Aligned_cols=190  Identities=7%  Similarity=-0.054  Sum_probs=90.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhcCC----ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044352          318 DVFTGSALIDMYSKCGSLKDARTLFEITRI----KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLS  393 (544)
Q Consensus       318 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  393 (544)
                      ++..+......+...|++++|...|+....    ++...+..+..++...|++++|+..+++..... +.+..++..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHH
Confidence            344455555555555555555555554331    334444445555555555555555555555431 223344555555


Q ss_pred             HHhcCCchHHHHHHHHHHHHHhCCCCch-------hHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC---hhHHHHHHHH
Q 044352          394 ACSHGGLVEKGLEIFRSMKERYGVKISK-------EHYACVVDMLCRSGRMVEAYDLLRQVP-MYVT---NSMAGAFRNG  462 (544)
Q Consensus       394 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~---~~~~~~l~~~  462 (544)
                      ++...|++++|...+++..+.  .+.+.       ..|..++..+...|++++|.+.|+++. ..|+   ...+..++.+
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  162 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVL  162 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHH
Confidence            555555555555555555543  12222       234444444445555555555554432 2222   2334444444


Q ss_pred             HhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          463 CNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       463 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +...     +...++++..+.+.++..+..  ......+.+++|+.+++++++..
T Consensus       163 ~~~~-----~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          163 FYNN-----GADVLRKATPLASSNKEKYAS--EKAKADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHH-----HHHHHHHHGGGTTTCHHHHHH--HHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHH-----HHHHHHHHHhcccCCHHHHHH--HHHHHHHHHHHHHHHHHHHhhcC
Confidence            3322     223334444444333222222  12233344599999999998765

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.48  E-value=7.1e-13  Score=128.81  Aligned_cols=193  Identities=11%  Similarity=-0.060  Sum_probs=97.6

Q ss_pred             CchhHHHHHHHHHhcCCH-HHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHH
Q 044352           77 NVFMLNWMVMASAFTGNF-QEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALI  155 (544)
Q Consensus        77 ~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  155 (544)
                      +...|..+...+...|++ ++|+..|++..+... .+...|..+...+...|++++|...++...+..  |+...+..+.
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg  177 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLS  177 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHH
Confidence            334444444444444444 444444444444211 123344444444444444444444444444432  3334444444


Q ss_pred             HHHHhC---------CCHHHHHHHHhhccC---CChhhHHHHHHHHhcc--------CChhHHHHHHHHHHHcCCC---C
Q 044352          156 DMYSKC---------GLLCSARRVFHGMFE---RDVVSWTSMISGYCNV--------SKVDEAVVLFERMKLEGLE---P  212 (544)
Q Consensus       156 ~~~~~~---------~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~---~  212 (544)
                      .++...         |++++|...|++..+   .+...|..+..+|...        |++++|...|++..+.. +   .
T Consensus       178 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~  256 (474)
T 4abn_A          178 MVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVD-RKASS  256 (474)
T ss_dssp             HHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHC-GGGGG
T ss_pred             HHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhC-CCccc
Confidence            444444         455555555544432   2334445555555544        55666666666665542 1   2


Q ss_pred             CHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHH
Q 044352          213 NQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKG  274 (544)
Q Consensus       213 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  274 (544)
                      +...|..+...|...|++++|...|++..+.. +.+...+..+..++...|++++|+..+.+
T Consensus       257 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          257 NPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            45556666666666666666666666665543 33445566666666666666666655443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.47  E-value=6.4e-11  Score=111.75  Aligned_cols=266  Identities=10%  Similarity=-0.031  Sum_probs=122.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhCCCCCCHh----HHHHHHHHHHcCCCHHHHHHHHHHHHHcCC-CCCH----HHHHHH
Q 044352          220 IIASYARRGDSNAAFAFFSRMTAEGFVPDLV----TWNAMISGFAQSKRENEALKLFKGMLVSGI-KPNN----VTVTGV  290 (544)
Q Consensus       220 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l  290 (544)
                      ....+...|++++|...+++.....-..+..    .++.+...+...|++++|...+.+...... .++.    .++..+
T Consensus        20 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   99 (373)
T 1hz4_A           20 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   99 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            3445556777777777777765543111211    344555666667777777777766654210 0111    112333


Q ss_pred             HHHhhccCchHHHHHHHHHHHHc----CCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcC
Q 044352          291 LQAGGLTGSIQIGREIHALVCRM----GLH--IDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHG  364 (544)
Q Consensus       291 ~~~~~~~~~~~~a~~~~~~~~~~----~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g  364 (544)
                      ...+...|++++|...++...+.    +..  |.                              ....+..+...+...|
T Consensus       100 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~------------------------------~~~~~~~la~~~~~~g  149 (373)
T 1hz4_A          100 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPM------------------------------HEFLVRIRAQLLWAWA  149 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTH------------------------------HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcH------------------------------HHHHHHHHHHHHHHhc
Confidence            34444455555555554444332    100  10                              1123334444455555


Q ss_pred             ChHHHHHHHHHHHHcCCC--C--CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHH-----HHHHHHHhcC
Q 044352          365 MVDSSIELFERMLEEGMR--A--NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYA-----CVVDMLCRSG  435 (544)
Q Consensus       365 ~~~~A~~~~~~~~~~~~~--~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~g  435 (544)
                      ++++|...+++.......  +  ...++..+...+...|++++|...+++.............+.     ..+..+...|
T Consensus       150 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g  229 (373)
T 1hz4_A          150 RLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTG  229 (373)
T ss_dssp             CHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCC
Confidence            555555555555442111  0  123344444555555555555555555543211111111111     1222344556


Q ss_pred             CHHHHHHHHHhCCC-CCC-----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC------chhHHHHHHHHHhcCCh
Q 044352          436 RMVEAYDLLRQVPM-YVT-----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK------PDGFVMLSNICAADGEW  503 (544)
Q Consensus       436 ~~~~A~~~~~~~~~-~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~  503 (544)
                      ++++|...+++... .+.     ...+..++..+...|++++|...++++++..+..      ..++..++.++...|+.
T Consensus       230 ~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  309 (373)
T 1hz4_A          230 DKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRK  309 (373)
T ss_dssp             CHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             CHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCH
Confidence            66666655555431 110     1123444455555566666666666555443211      12444455555666666


Q ss_pred             HHHHHHHHHHHh
Q 044352          504 HEAENLRKIMKE  515 (544)
Q Consensus       504 ~~A~~~~~~~~~  515 (544)
                      ++|...+++.++
T Consensus       310 ~~A~~~l~~al~  321 (373)
T 1hz4_A          310 SDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666665555543

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.47  E-value=3.8e-12  Score=110.94  Aligned_cols=207  Identities=11%  Similarity=0.039  Sum_probs=163.7

Q ss_pred             CCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHH
Q 044352          282 PNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIG  358 (544)
Q Consensus       282 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~  358 (544)
                      .|+..+......+...|++++|...|+...+...+++...+..+..++...|++++|...+++...   .+...|..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            456788888899999999999999999999987546778888899999999999999999997763   35678999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCC--chhHHHHHHH
Q 044352          359 CYGKHGMVDSSIELFERMLEEGMRANE-------VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKI--SKEHYACVVD  429 (544)
Q Consensus       359 ~~~~~g~~~~A~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~  429 (544)
                      ++...|++++|+..+++..+.. +.+.       .++..+...+...|++++|+..|+++.+.  .+.  +...+..++.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHH
Confidence            9999999999999999999862 3345       45778888899999999999999999752  233  4678888888


Q ss_pred             HHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          430 MLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       430 ~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      +|...|+.     .++++.  ...+...+...  .....+.+++|+..++++++++|+++.+...+..+..
T Consensus       162 ~~~~~~~~-----~~~~a~~~~~~~~~~~~~~--~~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~~  225 (228)
T 4i17_A          162 LFYNNGAD-----VLRKATPLASSNKEKYASE--KAKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVKA  225 (228)
T ss_dssp             HHHHHHHH-----HHHHHGGGTTTCHHHHHHH--HHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHH-----HHHHHHhcccCCHHHHHHH--HHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            88776653     222221  12233333322  3445677999999999999999999998888877653

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.46  E-value=2.5e-13  Score=124.74  Aligned_cols=167  Identities=13%  Similarity=0.016  Sum_probs=109.8

Q ss_pred             CCCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc---------ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---
Q 044352            7 PINNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN---------DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---   74 (544)
Q Consensus         7 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---   74 (544)
                      +.+|....++..++..+...|++++|...++++++.         +.... ++..++..+...|++++|+..+++..   
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~~~   99 (311)
T 3nf1_A           21 YEIPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVAT-MLNILALVYRDQNKYKDAANLLNDALAIR   99 (311)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHH-HHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            345556677888888888888888888888888873         22334 77778888888888888888877654   


Q ss_pred             --------CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcc------c-ccCHHHHHHHHHHhhCCCChHHHHHHHHHH
Q 044352           75 --------NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFI------Y-RCNKFTFSIVLKACVGLLDIKKGKQVHAVA  139 (544)
Q Consensus        75 --------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  139 (544)
                              +....++..+...+...|++++|+..++++.+..      . ......+..+...+...|++++|..+++.+
T Consensus       100 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  179 (311)
T 3nf1_A          100 EKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRA  179 (311)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                    1123456677777777788888887777776531      1 112345666666677777777777777766


Q ss_pred             HHc------CC-CCChhHHHHHHHHHHhCCCHHHHHHHHhhc
Q 044352          140 TQM------GF-ENDVSVGNALIDMYSKCGLLCSARRVFHGM  174 (544)
Q Consensus       140 ~~~------~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  174 (544)
                      .+.      +. +....++..+..+|...|++++|...++++
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  221 (311)
T 3nf1_A          180 LEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEI  221 (311)
T ss_dssp             HHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            654      11 112334555566666666666666666554

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.43  E-value=8e-12  Score=118.09  Aligned_cols=220  Identities=8%  Similarity=-0.017  Sum_probs=138.5

Q ss_pred             hccCchHHHHHHHHHHHHcCC--C---CCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC-----c-----cHHHHHHHHHH
Q 044352          295 GLTGSIQIGREIHALVCRMGL--H---IDVFTGSALIDMYSKCGSLKDARTLFEITRI-----K-----NVASWNAMIGC  359 (544)
Q Consensus       295 ~~~~~~~~a~~~~~~~~~~~~--~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~-----~~~~~~~l~~~  359 (544)
                      ...|++++|...+....+...  .   ....++..+...|...|+++.|...+++...     +     ...+++.+..+
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            344555555555554443210  0   1233555566666666776666666654331     1     12356777777


Q ss_pred             HHhcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHh---CCCCchhHHHHHHHHH
Q 044352          360 YGKHGMVDSSIELFERMLEE----GMRA-NEVTLISVLSACSHGGLVEKGLEIFRSMKERY---GVKISKEHYACVVDML  431 (544)
Q Consensus       360 ~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~l~~~~  431 (544)
                      |...|++++|.+.+++..+.    +..+ ...++..+..++...|++++|...+++..+..   +.+....++..++.+|
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            88888888888887777652    1111 12356677777888888888888888776521   2233356677788888


Q ss_pred             HhcCCHHHHHHHHHhCC----C--CCC-hhHHHHHHHHHhhcCC---hHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcC
Q 044352          432 CRSGRMVEAYDLLRQVP----M--YVT-NSMAGAFRNGCNIHGR---RDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG  501 (544)
Q Consensus       432 ~~~g~~~~A~~~~~~~~----~--~~~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  501 (544)
                      .+.|++++|...+++..    .  .+. ...+..+...+...|+   +.+|+..+++. ...|.....+..++.+|...|
T Consensus       272 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g  350 (378)
T 3q15_A          272 CKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFESSC  350 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHCC
Confidence            88888888888887652    1  222 2344555556667777   77777777662 222444566778899999999


Q ss_pred             ChHHHHHHHHHHHh
Q 044352          502 EWHEAENLRKIMKE  515 (544)
Q Consensus       502 ~~~~A~~~~~~~~~  515 (544)
                      ++++|..+++++.+
T Consensus       351 ~~~~A~~~~~~al~  364 (378)
T 3q15_A          351 HFEQAAAFYRKVLK  364 (378)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999888865

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.43  E-value=1.4e-11  Score=103.36  Aligned_cols=169  Identities=18%  Similarity=0.040  Sum_probs=146.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044352          319 VFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSAC  395 (544)
Q Consensus       319 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  395 (544)
                      ...+..+...+...|++++|...++.+..   .+...+..+...+...|++++|...++++.+. .+.+..++..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLAD-APDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHH
Confidence            44566778888999999999999998875   36778899999999999999999999999886 355778888899999


Q ss_pred             hcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHH
Q 044352          396 SHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAV  473 (544)
Q Consensus       396 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~  473 (544)
                      ...|++++|...++++.+.  .+.+...+..++..+...|++++|.+.++++.  .+.+...+..++..+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999999874  45677888999999999999999999999874  4456788899999999999999999


Q ss_pred             HHHHHHHHcCCCCchhH
Q 044352          474 TMGEEFFEMGLRKPDGF  490 (544)
Q Consensus       474 ~~~~~~~~~~p~~~~~~  490 (544)
                      ..++++++.+|+++...
T Consensus       165 ~~~~~~~~~~~~~~~~~  181 (186)
T 3as5_A          165 PHFKKANELDEGASVEL  181 (186)
T ss_dssp             HHHHHHHHHHHCCCGGG
T ss_pred             HHHHHHHHcCCCchhhH
Confidence            99999999998776543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.39  E-value=1.4e-10  Score=109.60  Aligned_cols=165  Identities=9%  Similarity=0.066  Sum_probs=119.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhcCC-----c----cHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCCH
Q 044352          319 VFTGSALIDMYSKCGSLKDARTLFEITRI-----K----NVASWNAMIGCYGKHGMVDSSIELFERMLEE----GMRANE  385 (544)
Q Consensus       319 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~  385 (544)
                      ..++..+..+|...|++++|...+++...     .    ...++..+..+|...|++++|...+++....    +.+...
T Consensus       182 ~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~  261 (378)
T 3q15_A          182 IQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLP  261 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHH
Confidence            34556667777777777777777665442     1    1236777888888899999999988888761    223346


Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc---hhHHHHHHHHHHhcCC---HHHHHHHHHhCCCCCC-hhHHHH
Q 044352          386 VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS---KEHYACVVDMLCRSGR---MVEAYDLLRQVPMYVT-NSMAGA  458 (544)
Q Consensus       386 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~-~~~~~~  458 (544)
                      .++..+..++...|++++|...+++..+......+   ...+..+...|...|+   +.+|..++++....++ ...+..
T Consensus       262 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~  341 (378)
T 3q15_A          262 KVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARS  341 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHH
Confidence            67888888999999999999999998875322112   3345556666777788   8889999988653333 345667


Q ss_pred             HHHHHhhcCChHHHHHHHHHHHHcC
Q 044352          459 FRNGCNIHGRRDLAVTMGEEFFEMG  483 (544)
Q Consensus       459 l~~~~~~~g~~~~A~~~~~~~~~~~  483 (544)
                      ++..|...|++++|...|+++++..
T Consensus       342 la~~y~~~g~~~~A~~~~~~al~~~  366 (378)
T 3q15_A          342 AAAVFESSCHFEQAAAFYRKVLKAQ  366 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            8889999999999999999998754

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.37  E-value=6.2e-12  Score=127.03  Aligned_cols=164  Identities=9%  Similarity=-0.070  Sum_probs=145.9

Q ss_pred             CCCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHH
Q 044352            8 INNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNW   83 (544)
Q Consensus         8 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~   83 (544)
                      ..|.++.+|+.+..++.+.|++++|++.|+++++. |.+.. ++..++.+|.+.|++++|+..|++..   +.+..+|..
T Consensus         4 s~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~-a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~n   82 (723)
T 4gyw_A            4 SCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAA-AHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSN   82 (723)
T ss_dssp             --CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            35567889999999999999999999999999999 66677 99999999999999999999999876   667889999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccccc-CHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC
Q 044352           84 MVMASAFTGNFQEAIGYFSLMREFIYRC-NKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCG  162 (544)
Q Consensus        84 l~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  162 (544)
                      +..++...|++++|++.|++.++.  .| +...|..+..++...|++++|+..+++.++.. +.+...+..+..++...|
T Consensus        83 Lg~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g  159 (723)
T 4gyw_A           83 MGNTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVC  159 (723)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcc
Confidence            999999999999999999999985  44 56789999999999999999999999999986 667888999999999999


Q ss_pred             CHHHHHHHHhhcc
Q 044352          163 LLCSARRVFHGMF  175 (544)
Q Consensus       163 ~~~~A~~~~~~~~  175 (544)
                      ++++|.+.++++.
T Consensus       160 ~~~~A~~~~~kal  172 (723)
T 4gyw_A          160 DWTDYDERMKKLV  172 (723)
T ss_dssp             CCTTHHHHHHHHH
T ss_pred             cHHHHHHHHHHHH
Confidence            9999998887763

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.35  E-value=9.2e-12  Score=112.37  Aligned_cols=198  Identities=15%  Similarity=0.099  Sum_probs=117.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhcCC-----------ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHc------CC
Q 044352          319 VFTGSALIDMYSKCGSLKDARTLFEITRI-----------KNVASWNAMIGCYGKHGMVDSSIELFERMLEE------GM  381 (544)
Q Consensus       319 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~  381 (544)
                      ..++..+...+...|++++|...++....           ....++..+...+...|++++|...++++...      ..
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  122 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKF  122 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCC
Confidence            44555556666666666666666554331           12335666777777777777777777776653      11


Q ss_pred             -CCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHh------CCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC------
Q 044352          382 -RANEVTLISVLSACSHGGLVEKGLEIFRSMKERY------GVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP------  448 (544)
Q Consensus       382 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~------  448 (544)
                       +....++..+...+...|++++|...++++.+..      ..+....++..++.+|...|++++|..+++++.      
T Consensus       123 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~  202 (283)
T 3edt_B          123 HPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEK  202 (283)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence             1234566777777778888888888777776531      122234567777778888888888888777652      


Q ss_pred             ----CCC-ChhHHHHHHHHHhhcC------ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          449 ----MYV-TNSMAGAFRNGCNIHG------RRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       449 ----~~~-~~~~~~~l~~~~~~~g------~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                          ..+ ....+..+...+...+      .+..+...++......|..+.++..++.+|...|++++|..+++++++.
T Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          203 EFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                112 2233333333333322      2334444444333344556678888999999999999999999988753

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.34  E-value=2.9e-10  Score=107.21  Aligned_cols=163  Identities=11%  Similarity=-0.080  Sum_probs=108.9

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHh----hHHHHHHHHHhcCChHHHHHHHHHhhhCCC-CCCH----hHH
Q 044352          182 WTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQF----TYNAIIASYARRGDSNAAFAFFSRMTAEGF-VPDL----VTW  252 (544)
Q Consensus       182 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~  252 (544)
                      .......+...|++++|...+++........+..    .+..+...+...|++++|...+++.....- .++.    .++
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            3444556778999999999999988764222222    456677788889999999999998764310 1122    235


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHc----CCC--CC-HHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCC----CHHH
Q 044352          253 NAMISGFAQSKRENEALKLFKGMLVS----GIK--PN-NVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHI----DVFT  321 (544)
Q Consensus       253 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~  321 (544)
                      ..+...+...|++++|...+++.+..    +..  |. ...+..+...+...|++++|...+....+.....    ...+
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            66778899999999999999998753    211  22 3345556777788888888888888877653221    1233


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHh
Q 044352          322 GSALIDMYSKCGSLKDARTLFEI  344 (544)
Q Consensus       322 ~~~l~~~~~~~~~~~~A~~~~~~  344 (544)
                      +..+...+...|++++|...++.
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~  199 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNR  199 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            44455555555555555555543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.34  E-value=5e-11  Score=106.23  Aligned_cols=183  Identities=11%  Similarity=0.009  Sum_probs=117.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--c-c---HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-C-CCHHHHH
Q 044352          318 DVFTGSALIDMYSKCGSLKDARTLFEITRI--K-N---VASWNAMIGCYGKHGMVDSSIELFERMLEEGM-R-ANEVTLI  389 (544)
Q Consensus       318 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~-~~~~~~~  389 (544)
                      +...+......+.+.|++++|...|+.+..  | +   ...+..+..++...|++++|+..|++++.... . .....+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            455666667777777777777777776653  2 2   45666777777777777777777777776421 1 1234555


Q ss_pred             HHHHHHhc--------CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHH
Q 044352          390 SVLSACSH--------GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRN  461 (544)
Q Consensus       390 ~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~  461 (544)
                      .+..++..        .|++++|...|+++.+.+  +.+......+.......++.               ...+..++.
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~---------------~~~~~~la~  156 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKL---------------ARKQYEAAR  156 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHH---------------HHHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHH---------------HHHHHHHHH
Confidence            66666666        777777777777776641  22222222211111000000               112456677


Q ss_pred             HHhhcCChHHHHHHHHHHHHcCCCCc---hhHHHHHHHHHhc----------CChHHHHHHHHHHHhcC
Q 044352          462 GCNIHGRRDLAVTMGEEFFEMGLRKP---DGFVMLSNICAAD----------GEWHEAENLRKIMKEKN  517 (544)
Q Consensus       462 ~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~  517 (544)
                      .|...|++++|+..|+++++..|+++   .++..++.+|...          |++++|+..|+++++..
T Consensus       157 ~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          157 LYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence            88888888888888888888888744   4778888888866          88888888888888754

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.32  E-value=2.7e-12  Score=103.33  Aligned_cols=140  Identities=6%  Similarity=-0.065  Sum_probs=93.4

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCH
Q 044352          359 CYGKHGMVDSSIELFERMLEEGMRA-NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRM  437 (544)
Q Consensus       359 ~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  437 (544)
                      .+...|++++|++.++.....  .| +...+..+...|...|++++|++.|+++.+.  .+.+...|..++.+|...|++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCch
Confidence            344456666666666665442  22 2334455666677777777777777776653  244566677777777777777


Q ss_pred             HHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHH-HHHHHHHcCCCCchhHHHHHHHHHhcCC
Q 044352          438 VEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVT-MGEEFFEMGLRKPDGFVMLSNICAADGE  502 (544)
Q Consensus       438 ~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~-~~~~~~~~~p~~~~~~~~l~~~~~~~g~  502 (544)
                      ++|...|+++.  .+.++.++..++..|...|++++|.+ +++++++++|+++.++...+.++...|+
T Consensus        82 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           82 DKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            77777776653  34456677778888888888776554 4588888888888888888888877775

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.31  E-value=2.6e-10  Score=98.82  Aligned_cols=182  Identities=12%  Similarity=0.005  Sum_probs=114.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhcCC--cc----HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-H---HHH
Q 044352          319 VFTGSALIDMYSKCGSLKDARTLFEITRI--KN----VASWNAMIGCYGKHGMVDSSIELFERMLEEGMRAN-E---VTL  388 (544)
Q Consensus       319 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~---~~~  388 (544)
                      ...+..++..+.+.|++++|...|+.+..  |+    ...+..++.++...|++++|+..|+++++.  .|+ .   ..+
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~   81 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVM   81 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHH
Confidence            44455566667777777777777776553  21    245666677777777777777777777764  232 1   133


Q ss_pred             HHHHHHHhc------------------CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCC
Q 044352          389 ISVLSACSH------------------GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMY  450 (544)
Q Consensus       389 ~~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  450 (544)
                      ..+..++..                  .|++++|...|+++.+.  .|.+............-.+..             
T Consensus        82 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~-------------  146 (225)
T 2yhc_A           82 YMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRL-------------  146 (225)
T ss_dssp             HHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHH-------------
T ss_pred             HHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHH-------------
Confidence            334444432                  34555666666555542  122222221111100000000             


Q ss_pred             CChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCc---hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 044352          451 VTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKP---DGFVMLSNICAADGEWHEAENLRKIMKEKNVQ  519 (544)
Q Consensus       451 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  519 (544)
                        ......++..|...|++++|+..|+++++..|+++   .++..++.++.+.|++++|++.++++...+..
T Consensus       147 --~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          147 --AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             --HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             --HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence              01123566788899999999999999999999886   57999999999999999999999999876543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.30  E-value=7.1e-11  Score=106.99  Aligned_cols=170  Identities=9%  Similarity=-0.051  Sum_probs=87.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCCc-----c----HHHHHHHHHHHHhc-CChHHHHHHHHHHHHcCCC-CC----H
Q 044352          321 TGSALIDMYSKCGSLKDARTLFEITRIK-----N----VASWNAMIGCYGKH-GMVDSSIELFERMLEEGMR-AN----E  385 (544)
Q Consensus       321 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~----~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~-~~----~  385 (544)
                      ++..+..+|...|++++|+..+++...-     +    ..+++.+...|... |++++|+..|++.++.... .+    .
T Consensus        79 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~  158 (292)
T 1qqe_A           79 TYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSN  158 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHH
Confidence            3444444555555555555444433310     0    23455666666664 7777777777766653100 01    2


Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCch-----hHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCCh------
Q 044352          386 VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISK-----EHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTN------  453 (544)
Q Consensus       386 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~------  453 (544)
                      .++..+...+...|++++|+..|+++.+...-.+..     ..+..++.++...|++++|...|++.. ..|+.      
T Consensus       159 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~  238 (292)
T 1qqe_A          159 KCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRES  238 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------H
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHH
Confidence            345666666777777777777777766531111111     135556666666677777777666653 22221      


Q ss_pred             hHHHHHHHHHh--hcCChHHHHHHHHHHHHcCCCCchhH
Q 044352          454 SMAGAFRNGCN--IHGRRDLAVTMGEEFFEMGLRKPDGF  490 (544)
Q Consensus       454 ~~~~~l~~~~~--~~g~~~~A~~~~~~~~~~~p~~~~~~  490 (544)
                      ..+..++.++.  ..+++++|+..|+++++++|.+...+
T Consensus       239 ~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~~~  277 (292)
T 1qqe_A          239 NFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITIL  277 (292)
T ss_dssp             HHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHHHH
Confidence            12233333333  34556666666666666666443333

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.29  E-value=8.2e-11  Score=104.81  Aligned_cols=205  Identities=13%  Similarity=0.002  Sum_probs=150.5

Q ss_pred             CCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHhcCC--c----cHH
Q 044352          281 KPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHID---VFTGSALIDMYSKCGSLKDARTLFEITRI--K----NVA  351 (544)
Q Consensus       281 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~----~~~  351 (544)
                      +.+...+......+...|++++|...|+.+.+..+. +   ..++..+..++.+.|++++|...|+....  |    ...
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            345677888888899999999999999999987532 3   67888899999999999999999998764  2    245


Q ss_pred             HHHHHHHHHHh--------cCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchh
Q 044352          352 SWNAMIGCYGK--------HGMVDSSIELFERMLEEGMRAN-EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKE  422 (544)
Q Consensus       352 ~~~~l~~~~~~--------~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  422 (544)
                      .+..+..++..        .|++++|+..|++++..  .|+ ......              ...+..+...     ...
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a--------------~~~~~~~~~~-----~~~  149 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDA--------------TQKIRELRAK-----LAR  149 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHH--------------HHHHHHHHHH-----HHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHH--------------HHHHHHHHHH-----HHH
Confidence            77888888988        99999999999999986  343 222211              1111121111     122


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC-CCC----ChhHHHHHHHHHhhc----------CChHHHHHHHHHHHHcCCCCc
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP-MYV----TNSMAGAFRNGCNIH----------GRRDLAVTMGEEFFEMGLRKP  487 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~p~~~  487 (544)
                      .+..++.+|.+.|++++|+..|+++. ..|    ....+..++.+|...          |++++|+..|+++++..|+++
T Consensus       150 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~  229 (261)
T 3qky_A          150 KQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSP  229 (261)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCT
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCCh
Confidence            35667888888999999988888763 122    245677777777765          899999999999999999987


Q ss_pred             hh---HHHHHHHHHhcCChHHHH
Q 044352          488 DG---FVMLSNICAADGEWHEAE  507 (544)
Q Consensus       488 ~~---~~~l~~~~~~~g~~~~A~  507 (544)
                      .+   ...+..++.+.|+++++.
T Consensus       230 ~~~~a~~~l~~~~~~~~~~~~~~  252 (261)
T 3qky_A          230 LLRTAEELYTRARQRLTELEGDA  252 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCT
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhh
Confidence            54   455566666666655443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.29  E-value=7.2e-10  Score=98.08  Aligned_cols=181  Identities=6%  Similarity=-0.032  Sum_probs=122.7

Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC-----ccHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          303 GREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI-----KNVASWNAMIGCYGKHGMVDSSIELFERML  377 (544)
Q Consensus       303 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  377 (544)
                      +...++++.+.+ .++...+..+..++...|++++|++++.....     .+...+..++..+.+.|+.+.|.+.+++|.
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            455555555444 33445555777778888888888888877632     245577778888888888888888888887


Q ss_pred             HcCCCC-----CHHHHHHHHHH--Hhc--CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC
Q 044352          378 EEGMRA-----NEVTLISVLSA--CSH--GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP  448 (544)
Q Consensus       378 ~~~~~~-----~~~~~~~l~~~--~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  448 (544)
                      +.  .|     +..+...++.+  ...  .++++.|..+|+++.+.   .|+......+..++.+.|++++|.+.++.+.
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            74  56     35566666655  222  33788888888888653   3442222333337888888888888887542


Q ss_pred             C------------CCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHH
Q 044352          449 M------------YVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFV  491 (544)
Q Consensus       449 ~------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  491 (544)
                      .            +.++.+...++......|+  +|.++++++.+..|++|.+..
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~d  291 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIKH  291 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHHH
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHHH
Confidence            1            3355666566666666676  788889999999998887665

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.29  E-value=5.6e-11  Score=107.64  Aligned_cols=202  Identities=10%  Similarity=0.029  Sum_probs=148.2

Q ss_pred             chHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC-------c--cHHHHHHHHHHHHhcCChHHH
Q 044352          299 SIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI-------K--NVASWNAMIGCYGKHGMVDSS  369 (544)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-------~--~~~~~~~l~~~~~~~g~~~~A  369 (544)
                      ++++|...+...               +..|...|++++|...|++...       +  ...+|+.+..+|...|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            477787777665               4457788999999888876543       1  145789999999999999999


Q ss_pred             HHHHHHHHHcCC---CC--CHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHhcCCHHH
Q 044352          370 IELFERMLEEGM---RA--NEVTLISVLSACSHG-GLVEKGLEIFRSMKERYGVKIS----KEHYACVVDMLCRSGRMVE  439 (544)
Q Consensus       370 ~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~  439 (544)
                      +..+++.+....   .+  -..++..+..+|... |++++|+..|++..+...-..+    ..++..++..|.+.|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            999999876311   11  134788888999996 9999999999998774211111    3568889999999999999


Q ss_pred             HHHHHHhCC-CCCC---h-----hHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchh-----HHHHHHHHH--hcCCh
Q 044352          440 AYDLLRQVP-MYVT---N-----SMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDG-----FVMLSNICA--ADGEW  503 (544)
Q Consensus       440 A~~~~~~~~-~~~~---~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~-----~~~l~~~~~--~~g~~  503 (544)
                      |+..|+++. ..|+   .     ..+..++.++...|++++|+..|+++++++|..+..     +..++.++.  ..+++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~  256 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHH
Confidence            999999863 2222   1     156777888999999999999999999999976653     445566665  45788


Q ss_pred             HHHHHHHHHHHh
Q 044352          504 HEAENLRKIMKE  515 (544)
Q Consensus       504 ~~A~~~~~~~~~  515 (544)
                      ++|+..|+++.+
T Consensus       257 ~~A~~~~~~~~~  268 (292)
T 1qqe_A          257 SEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHHHTTSSC
T ss_pred             HHHHHHhccCCc
Confidence            999988876543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.28  E-value=1e-09  Score=97.16  Aligned_cols=175  Identities=11%  Similarity=0.046  Sum_probs=137.8

Q ss_pred             HHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Q 044352          338 ARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGM-RANEVTLISVLSACSHGGLVEKGLEIFRSMKE  413 (544)
Q Consensus       338 A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  413 (544)
                      |+..|++...   ++...+..+..++...|++++|++++.+.+..+- .-+...+...+..+.+.|+.+.|.+.+++|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            6677776653   4555667888999999999999999999877643 23667888899999999999999999999976


Q ss_pred             HhCCCC-----chhHHHHHHHH--HHhcC--CHHHHHHHHHhCC-CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHc-
Q 044352          414 RYGVKI-----SKEHYACVVDM--LCRSG--RMVEAYDLLRQVP-MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEM-  482 (544)
Q Consensus       414 ~~~~~~-----~~~~~~~l~~~--~~~~g--~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-  482 (544)
                      .   .|     +..+...++.+  ....|  ++.+|..+|+++. ..|+......+..++.+.|++++|.+.++.+.+. 
T Consensus       165 ~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          165 A---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             H---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             c---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            4   55     35555666655  44445  9999999999985 3454233333444899999999999999988776 


Q ss_pred             ---------CCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          483 ---------GLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       483 ---------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                               +|+|+.++..++.+....|+  +|.++++++.+..
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence                     58899999899888888887  8999999998765

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.27  E-value=1.3e-10  Score=104.85  Aligned_cols=176  Identities=10%  Similarity=-0.025  Sum_probs=141.7

Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHh
Q 044352          336 KDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERY  415 (544)
Q Consensus       336 ~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  415 (544)
                      +.....+......+...+..+...+...|++++|...|++..... +.+...+..+...+...|++++|...++++... 
T Consensus       103 ~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~-  180 (287)
T 3qou_A          103 EAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ-  180 (287)
T ss_dssp             HHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG-
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh-
Confidence            344445555555556677778888889999999999999998862 446778888999999999999999999988653 


Q ss_pred             CCCCchhHH-HHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC--chhH
Q 044352          416 GVKISKEHY-ACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK--PDGF  490 (544)
Q Consensus       416 ~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~--~~~~  490 (544)
                        .|+.... ......+...++.++|...++++.  .+.+...+..++..+...|++++|+..|+++++.+|++  +.++
T Consensus       181 --~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~  258 (287)
T 3qou_A          181 --DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTR  258 (287)
T ss_dssp             --GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHH
T ss_pred             --hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHH
Confidence              3444332 233334667788888888888764  55678899999999999999999999999999999988  8899


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          491 VMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       491 ~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      ..++.++...|+.++|...|++.+.
T Consensus       259 ~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          259 XTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            9999999999999999999988764

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.27  E-value=1.4e-10  Score=91.28  Aligned_cols=128  Identities=16%  Similarity=0.157  Sum_probs=88.6

Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhh
Q 044352          388 LISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNI  465 (544)
Q Consensus       388 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~  465 (544)
                      +..+...+...|++++|..+++++.+.  .+.+...+..++..+...|++++|..+++++.  .+.+...+..++..+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            344444555555566666655555543  22344455555566666666666666665542  23445567777778888


Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          466 HGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       466 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .|++++|...++++++..|.++.++..++.++.+.|++++|...++++.+.+
T Consensus        82 ~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             hcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            8889999999999988888888888889999999999999999988887654

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.26  E-value=2.4e-11  Score=123.46  Aligned_cols=169  Identities=11%  Similarity=-0.074  Sum_probs=104.9

Q ss_pred             HhcCCHHHHHHHHHhcC-----------CccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 044352          330 SKCGSLKDARTLFEITR-----------IKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHG  398 (544)
Q Consensus       330 ~~~~~~~~A~~~~~~~~-----------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  398 (544)
                      ...|++++|++.+++..           ..+...+..+..++...|++++|+..++++++.. +.+...+..+..++...
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            45666666666666554           2344566666666666677777777776666642 33555666666666666


Q ss_pred             CchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHH
Q 044352          399 GLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMG  476 (544)
Q Consensus       399 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~  476 (544)
                      |++++|...|+++.+.  .+.+...+..++.+|.+.|++++ .+.|+++.  .+.+...+..++.++...|++++|+..|
T Consensus       481 g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            7777777777666653  23345566666666667777666 66666653  3344556666666677777777777777


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHhcCC
Q 044352          477 EEFFEMGLRKPDGFVMLSNICAADGE  502 (544)
Q Consensus       477 ~~~~~~~p~~~~~~~~l~~~~~~~g~  502 (544)
                      +++++++|.++.++..++.++...|+
T Consensus       558 ~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HhhcccCcccHHHHHHHHHHHHccCC
Confidence            77777777666666666666655444

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.25  E-value=6e-10  Score=95.42  Aligned_cols=162  Identities=8%  Similarity=-0.069  Sum_probs=127.2

Q ss_pred             ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC----chHHHHHHHHHHHHHhCCCCchhH
Q 044352          348 KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGG----LVEKGLEIFRSMKERYGVKISKEH  423 (544)
Q Consensus       348 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~  423 (544)
                      .++..+..+...|...+++++|+..|++..+.|   ++..+..+...|.. +    ++++|..+|++..+.    .+...
T Consensus        16 g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~----g~~~a   87 (212)
T 3rjv_A           16 GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEA----GSKSG   87 (212)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHT----TCHHH
T ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHC----CCHHH
Confidence            456667777777777788888888888887754   55666677777776 5    788888888888653    35667


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHhCCCCCC----hhHHHHHHHHHhh----cCChHHHHHHHHHHHHcCCCCchhHH
Q 044352          424 YACVVDMLCR----SGRMVEAYDLLRQVPMYVT----NSMAGAFRNGCNI----HGRRDLAVTMGEEFFEMGLRKPDGFV  491 (544)
Q Consensus       424 ~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~----~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~  491 (544)
                      +..+...|..    .+++++|.++|++.....+    +.++..++..|..    .+++++|+.+|+++.++ |.++.++.
T Consensus        88 ~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~~  166 (212)
T 3rjv_A           88 EIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAEY  166 (212)
T ss_dssp             HHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHHH
T ss_pred             HHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHHH
Confidence            7788888876    7889999999988753333    7788888888887    78999999999999988 66788999


Q ss_pred             HHHHHHHhc-C-----ChHHHHHHHHHHHhcCC
Q 044352          492 MLSNICAAD-G-----EWHEAENLRKIMKEKNV  518 (544)
Q Consensus       492 ~l~~~~~~~-g-----~~~~A~~~~~~~~~~~~  518 (544)
                      .|+.+|... |     ++++|+.+|++..+.|.
T Consensus       167 ~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          167 WAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            999998865 3     89999999999988764

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.24  E-value=1.3e-11  Score=99.24  Aligned_cols=125  Identities=7%  Similarity=-0.071  Sum_probs=104.6

Q ss_pred             HHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCC
Q 044352          391 VLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGR  468 (544)
Q Consensus       391 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~  468 (544)
                      |...+...|++++|+..++....  ..+.+...+..++..|.+.|++++|.+.|+++.  .+.+..+|..++.++...|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCc
Confidence            34456677899999999988754  222335567789999999999999999999874  55678899999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHH-HHHHHhcC
Q 044352          469 RDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENL-RKIMKEKN  517 (544)
Q Consensus       469 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~  517 (544)
                      +++|+..|+++++++|+++.++..++.+|.+.|++++|.+. ++++++..
T Consensus        81 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~  130 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF  130 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999987775 58888754

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.22  E-value=7.5e-11  Score=94.17  Aligned_cols=98  Identities=10%  Similarity=0.003  Sum_probs=87.2

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC  497 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  497 (544)
                      +...+..++..+.+.|++++|...|+++.  .+.++..|..++.++...|++++|+..|+++++++|+++.++..++.+|
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~  114 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHH
Confidence            35567788888889999999999998874  5567888999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHhcC
Q 044352          498 AADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       498 ~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .+.|++++|+..|+++++..
T Consensus       115 ~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999998765

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.19  E-value=1.6e-08  Score=98.12  Aligned_cols=375  Identities=10%  Similarity=-0.062  Sum_probs=206.9

Q ss_pred             cCC-ChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCC-ChHHHHHHH
Q 044352           59 GCG-DVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLL-DIKKGKQVH  136 (544)
Q Consensus        59 ~~g-~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~  136 (544)
                      +.| +++.|+.+|+...           ..+-. |+++.+..+|++.+.  ..|+...|...+....+.+ ..+....+|
T Consensus         6 ~~~~~i~~aR~vyer~l-----------~~~P~-~~~e~~~~iferal~--~~ps~~LW~~Y~~f~~~~~~~~~~i~~~f   71 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHAR-----------RLYMS-KDYRSLESLFGRCLK--KSYNLDLWMLYIEYVRKVSQKKFKLYEVY   71 (493)
T ss_dssp             ------CCHHHHHHHHH-----------HHHHT-TCHHHHHHHHHHHST--TCCCHHHHHHHHHHHHHHC----CTHHHH
T ss_pred             HcCcchHHHHHHHHHHH-----------HHCCC-CCHHHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCchHHHHHHHH
Confidence            345 3667777776643           11111 889999999999887  3478888877777665555 245667777


Q ss_pred             HHHHHc-CC-CCChhHHHHHHHHHHh----CCCHHHHHHHHhhccCCChh----hHHHHHHHHhccCChhHHHHHHHHHH
Q 044352          137 AVATQM-GF-ENDVSVGNALIDMYSK----CGLLCSARRVFHGMFERDVV----SWTSMISGYCNVSKVDEAVVLFERMK  206 (544)
Q Consensus       137 ~~~~~~-~~-~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~  206 (544)
                      +..+.. |. +.+..+|...+..+..    +++.+.+..+|++.......    .|...... ....+...+..++.+..
T Consensus        72 e~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~f-E~~~~~~~~~~~~~~~~  150 (493)
T 2uy1_A           72 EFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENF-ELELNKITGKKIVGDTL  150 (493)
T ss_dssp             HHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHH-HHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHH-HHHhccccHHHHHHHHh
Confidence            777664 42 3456777777765542    35677788888887552111    22222211 11111222222222110


Q ss_pred             HcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCC--C-----HHHHHHHHHHHHHcC
Q 044352          207 LEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSK--R-----ENEALKLFKGMLVSG  279 (544)
Q Consensus       207 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~-----~~~a~~~~~~~~~~~  279 (544)
                                           +.+..|..+++.+...--..+...|...+..-...+  -     .+.+..+|++++...
T Consensus       151 ---------------------~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~  209 (493)
T 2uy1_A          151 ---------------------PIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF  209 (493)
T ss_dssp             ---------------------HHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT
T ss_pred             ---------------------HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC
Confidence                                 122223333333221100012334444443322211  0     234556677666542


Q ss_pred             CCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcC------------C
Q 044352          280 IKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITR------------I  347 (544)
Q Consensus       280 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~------------~  347 (544)
                       +.+...|...+.-+...|+.+.|..++++....  +.+...+...... .+.++.  ...+.+...            .
T Consensus       210 -p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~y~~~-~e~~~~--~~~l~~~~~~~~~~~~~~~~~~  283 (493)
T 2uy1_A          210 -YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLYYGLV-MDEEAV--YGDLKRKYSMGEAESAEKVFSK  283 (493)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHH-TTCTHH--HHHHHHHTC----------CHH
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHHHHhh-cchhHH--HHHHHHHHHhhccchhhhhccc
Confidence             344556666666666677777777777777766  3333322221111 011110  111111110            0


Q ss_pred             ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc-CCchHHHHHHHHHHHHHhCCCCchhHHHH
Q 044352          348 KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSH-GGLVEKGLEIFRSMKERYGVKISKEHYAC  426 (544)
Q Consensus       348 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  426 (544)
                      .....|...+....+.++.+.|..+|+++ .. ...+...|...+..-.. .++.+.|..+|+...+.+  +.++..+..
T Consensus       284 ~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~--~~~~~~~~~  359 (493)
T 2uy1_A          284 ELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH--PDSTLLKEE  359 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC--TTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--CCCHHHHHH
Confidence            12246777777777778899999999998 32 12344555433322222 236899999999998863  334556666


Q ss_pred             HHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHH
Q 044352          427 VVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFE  481 (544)
Q Consensus       427 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  481 (544)
                      .+......|+.+.|..+|+++.  .....|...+..-...|+.+.+..+++++++
T Consensus       360 yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          360 FFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7777788899999999999984  3567788777777788999999998988875

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.19  E-value=4.5e-10  Score=101.18  Aligned_cols=224  Identities=13%  Similarity=0.058  Sum_probs=127.9

Q ss_pred             hcCChHHHHHHHHHhhhC-------CCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHc------CCCCCHHHHHHHHH
Q 044352          226 RRGDSNAAFAFFSRMTAE-------GFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVS------GIKPNNVTVTGVLQ  292 (544)
Q Consensus       226 ~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~  292 (544)
                      ..|++++|+.+|++..+.       ..+....++..+...|...|++++|...++++++.      +..|          
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~----------   82 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHP----------   82 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCH----------
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcch----------
Confidence            455666665555554431       11223456667777777777777777777776643      1111          


Q ss_pred             HhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC-----------ccHHHHHHHHHHHH
Q 044352          293 AGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI-----------KNVASWNAMIGCYG  361 (544)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----------~~~~~~~~l~~~~~  361 (544)
                                              ....++..+..++...|++++|...+++...           ....++..+...+.
T Consensus        83 ------------------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~  138 (283)
T 3edt_B           83 ------------------------AVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQ  138 (283)
T ss_dssp             ------------------------HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             ------------------------HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHH
Confidence                                    1223344444455555555555554443321           12345666777777


Q ss_pred             hcCChHHHHHHHHHHHHc------CCCC-CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHh-------CCCCchhHHHHH
Q 044352          362 KHGMVDSSIELFERMLEE------GMRA-NEVTLISVLSACSHGGLVEKGLEIFRSMKERY-------GVKISKEHYACV  427 (544)
Q Consensus       362 ~~g~~~~A~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~~l  427 (544)
                      ..|++++|...++++...      +..| ...++..+..++...|++++|..+++++.+..       ........+..+
T Consensus       139 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  218 (283)
T 3edt_B          139 NQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHA  218 (283)
T ss_dssp             TTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHH
Confidence            777777777777777664      1122 34567777788888888888888888876531       011223334444


Q ss_pred             HHHHHhcCC------HHHHHHHHHhCC-CCC-ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC
Q 044352          428 VDMLCRSGR------MVEAYDLLRQVP-MYV-TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG  483 (544)
Q Consensus       428 ~~~~~~~g~------~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  483 (544)
                      ...+...+.      +.++...++... ..| ...++..++..|...|++++|..+++++++..
T Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  282 (283)
T 3edt_B          219 EEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRNR  282 (283)
T ss_dssp             HHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            444443332      344444455443 222 34577888889999999999999999998753

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.19  E-value=3.1e-10  Score=113.48  Aligned_cols=160  Identities=8%  Similarity=-0.018  Sum_probs=125.7

Q ss_pred             cCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHH
Q 044352          332 CGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIF  408 (544)
Q Consensus       332 ~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  408 (544)
                      .|++++|...+++...   .+...|..+...+...|++++|.+.+++..+.. +.+...+..+..++...|++++|.+.+
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            4788999999988774   356789999999999999999999999999862 446788999999999999999999999


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhc---CChHHHHHHHHHHHHcC
Q 044352          409 RSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIH---GRRDLAVTMGEEFFEMG  483 (544)
Q Consensus       409 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~  483 (544)
                      ++..+.  .+.+...+..++.+|.+.|++++|.+.++++.  .+.+...+..++.++...   |++++|...++++++.+
T Consensus        81 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            999875  35567889999999999999999999999874  445677888899999999   99999999999999999


Q ss_pred             CCCchhHHHHH
Q 044352          484 LRKPDGFVMLS  494 (544)
Q Consensus       484 p~~~~~~~~l~  494 (544)
                      |.+...+..++
T Consensus       159 p~~~~~~~~l~  169 (568)
T 2vsy_A          159 VGAVEPFAFLS  169 (568)
T ss_dssp             CCCSCHHHHTT
T ss_pred             CcccChHHHhC
Confidence            99988888776

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.19  E-value=1.4e-10  Score=96.17  Aligned_cols=76  Identities=14%  Similarity=0.017  Sum_probs=62.4

Q ss_pred             HHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC--chhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          440 AYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK--PDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       440 A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      |...++++.  .+.+...+..++.++...|++++|+..|+++++.+|+.  +.++..++.++...|+.++|...|++.+.
T Consensus        93 a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A           93 ELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            455555442  34457788888889999999999999999999999865  55899999999999999999999998765

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.18  E-value=1.1e-09  Score=86.08  Aligned_cols=131  Identities=18%  Similarity=0.212  Sum_probs=107.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDML  431 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  431 (544)
                      .|..++..+...|++++|..+++++.... +.+...+..+...+...|++++|..+++++...  .+.+...+..++..+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHH
Confidence            46677778888888999999888888763 446677778888888889999999999888774  345567788888889


Q ss_pred             HhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC
Q 044352          432 CRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR  485 (544)
Q Consensus       432 ~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  485 (544)
                      ...|++++|.+.++++.  .+.+...+..++..+...|++++|...++++++.+|.
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            99999999999988764  3446778888888999999999999999999998885

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.17  E-value=9.5e-10  Score=93.92  Aligned_cols=128  Identities=9%  Similarity=-0.023  Sum_probs=101.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 044352          354 NAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR  433 (544)
Q Consensus       354 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  433 (544)
                      ..+..++...|++++|+..|++.++.. +.+...+..+..++...|++++|...|+++.+.  .|.+...+..++.+|..
T Consensus        58 ~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~  134 (208)
T 3urz_A           58 TELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYL  134 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHH
Confidence            338889999999999999999999863 447788999999999999999999999999884  35567888889888876


Q ss_pred             cCC--HHHHHHHHHhCCCCCCh--hHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC
Q 044352          434 SGR--MVEAYDLLRQVPMYVTN--SMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR  485 (544)
Q Consensus       434 ~g~--~~~A~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  485 (544)
                      .|.  ...+...++.+. .|++  ..+...+.++...|++++|+..|+++++++|+
T Consensus       135 ~~~~~~~~~~~~~~~~~-~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          135 TAEQEKKKLETDYKKLS-SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             HHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             HhHHHHHHHHHHHHHHh-CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            654  445666776664 3333  34555666778889999999999999999995

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.15  E-value=5.8e-10  Score=113.37  Aligned_cols=179  Identities=11%  Similarity=-0.015  Sum_probs=137.7

Q ss_pred             CCCCcchHHHHHHHhhccchhhhhhHHhHHHh--------hc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CC
Q 044352            9 NNLSVNYLDCLLGKCMKSKALRQGKQVHALLC--------TN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NP   76 (544)
Q Consensus         9 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~   76 (544)
                      +|.++.++....   ...|++++|++.+++++        +. |.+.. ++..++.++...|++++|+..|+++.   +.
T Consensus       390 ~p~~~~a~~~~a---~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~-~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~  465 (681)
T 2pzi_A          390 DPTDVAASVLQA---TVLSQPVQTLDSLRAARHGALDADGVDFSESVE-LPLMEVRALLDLGDVAKATRKLDDLAERVGW  465 (681)
T ss_dssp             CTTSTTHHHHHH---TTTCCHHHHHHHHHHHHTC-------CCTTCSH-HHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC
T ss_pred             CCCCcchHHhhc---ccccCHHHHHHHHHHhhhhcccccccccccchh-HHHHHHHHHHhcCCHHHHHHHHHHHhccCcc
Confidence            344444444333   67889999999999998        66 55666 88889999999999999999998876   66


Q ss_pred             CchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHH
Q 044352           77 NVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALID  156 (544)
Q Consensus        77 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  156 (544)
                      +...|..+..++...|++++|+..|++..+... -+...+..+..++.+.|++++ ...++++.+.+ +.+...+..+..
T Consensus       466 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~  542 (681)
T 2pzi_A          466 RWRLVWYRAVAELLTGDYDSATKHFTEVLDTFP-GELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLAR  542 (681)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHH
Confidence            778888889999999999999999999887432 255677888888888999999 99999888875 567778888888


Q ss_pred             HHHhCCCHHHHHHHHhhccCCC---hhhHHHHHHHHhccCC
Q 044352          157 MYSKCGLLCSARRVFHGMFERD---VVSWTSMISGYCNVSK  194 (544)
Q Consensus       157 ~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~  194 (544)
                      ++.+.|++++|...|+++.+.+   ...+..+..++...++
T Consensus       543 ~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          543 ARSAEGDRVGAVRTLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHTTCHHHHHHHHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHHHcCCHHHHHHHHHhhcccCcccHHHHHHHHHHHHccCC
Confidence            9999999999999999887633   3456666666655554

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.14  E-value=3.4e-10  Score=87.69  Aligned_cols=94  Identities=9%  Similarity=-0.024  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhc
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAAD  500 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  500 (544)
                      .+...+..|.+.|++++|++.|+++.  .+.+..+|..++.++...|++++|+..++++++++|+++.+|..+|.++...
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~   94 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVAM   94 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC
Confidence            34444555555555555555555442  2334445555555555555555555555555555555555555555555555


Q ss_pred             CChHHHHHHHHHHHhc
Q 044352          501 GEWHEAENLRKIMKEK  516 (544)
Q Consensus       501 g~~~~A~~~~~~~~~~  516 (544)
                      |++++|++.|+++++.
T Consensus        95 ~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           95 REWSKAQRAYEDALQV  110 (126)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            5555555555555543

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.14  E-value=8.2e-10  Score=91.54  Aligned_cols=161  Identities=9%  Similarity=-0.052  Sum_probs=99.8

Q ss_pred             CCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC--CCCchhHHHHHH
Q 044352           10 NLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP--NPNVFMLNWMVM   86 (544)
Q Consensus        10 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~   86 (544)
                      |.+...+...+..+...|++++|...++++++. |.+.. ++..++.++...|++++|+..|+++.  .|++..+..+..
T Consensus         3 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~-a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~   81 (176)
T 2r5s_A            3 ASPDEQLLKQVSELLQQGEHAQALNVIQTLSDELQSRGD-VKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLIAK   81 (176)
T ss_dssp             ---CTTHHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHH-HHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHH-HHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHHHHHHH
Confidence            444567788888888999999999999998888 66777 88889999999999999999998887  234433322221


Q ss_pred             H-HHhcCCHHHHHHHHHHHHhccccc-CHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCC-ChhHHHHHHHHHHhCCC
Q 044352           87 A-SAFTGNFQEAIGYFSLMREFIYRC-NKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFEN-DVSVGNALIDMYSKCGL  163 (544)
Q Consensus        87 ~-~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  163 (544)
                      . +...+...+|+..+++..+.  .| +...+..+...+...|++++|...++.+.+....+ +...+..+..++...|+
T Consensus        82 ~~~~~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~  159 (176)
T 2r5s_A           82 LELHQQAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQ  159 (176)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCS
T ss_pred             HHHHhhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCC
Confidence            1 11222223456666666653  23 34555555666666666666666666666553111 23355555555555566


Q ss_pred             HHHHHHHHhh
Q 044352          164 LCSARRVFHG  173 (544)
Q Consensus       164 ~~~A~~~~~~  173 (544)
                      .++|...|++
T Consensus       160 ~~~A~~~y~~  169 (176)
T 2r5s_A          160 GNAIASKYRR  169 (176)
T ss_dssp             SCHHHHHHHH
T ss_pred             CCcHHHHHHH
Confidence            5555555543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.13  E-value=7.5e-10  Score=85.69  Aligned_cols=110  Identities=8%  Similarity=-0.138  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHH
Q 044352          386 VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGC  463 (544)
Q Consensus       386 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~  463 (544)
                      ..+......+.+.|++++|++.|++..+.  .+.+...|..++.+|.+.|++++|++.++++.  .+.+..+|..++.++
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            35666777788888888888888888764  35567788888888888888888888888764  455678899999999


Q ss_pred             hhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044352          464 NIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC  497 (544)
Q Consensus       464 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  497 (544)
                      ...|++++|+..|+++++++|+++.++..++.++
T Consensus        92 ~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~l  125 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQVDPSNEEAREGVRNCL  125 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHC
T ss_pred             HHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHhc
Confidence            9999999999999999999999999998887653

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.13  E-value=1.1e-07  Score=92.29  Aligned_cols=373  Identities=8%  Similarity=-0.072  Sum_probs=210.0

Q ss_pred             ccc-hhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCC--CCCchhHHHHHHHHHhcCC-HHHHHHH
Q 044352           25 KSK-ALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP--NPNVFMLNWMVMASAFTGN-FQEAIGY  100 (544)
Q Consensus        25 ~~g-~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~-~~~A~~~  100 (544)
                      +.| +++.|..+|+.++..-|.               |+++.+..+|++..  -|++..|...+....+.++ .+....+
T Consensus         6 ~~~~~i~~aR~vyer~l~~~P~---------------~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~   70 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARRLYMS---------------KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEV   70 (493)
T ss_dssp             ------CCHHHHHHHHHHHHHT---------------TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHH
T ss_pred             HcCcchHHHHHHHHHHHHHCCC---------------CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHH
Confidence            346 478888888888877222               67888888888876  4678888888877766663 3556677


Q ss_pred             HHHHHhc-cccc-CHHHHHHHHHHhhC----CCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhc
Q 044352          101 FSLMREF-IYRC-NKFTFSIVLKACVG----LLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGM  174 (544)
Q Consensus       101 ~~~~~~~-~~~p-~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  174 (544)
                      |+..+.. |..| +...|...+..+..    .++.+.+..+|++.+......-...|......-.. .....+..++.+.
T Consensus        71 fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~-~~~~~~~~~~~~~  149 (493)
T 2uy1_A           71 YEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELE-LNKITGKKIVGDT  149 (493)
T ss_dssp             HHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHH-HCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHH-hccccHHHHHHHH
Confidence            7777653 3222 44566666665432    35677888888888874211112223322221111 1122222222211


Q ss_pred             cCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcC--C-----hHHHHHHHHHhhhCCCCC
Q 044352          175 FERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRG--D-----SNAAFAFFSRMTAEGFVP  247 (544)
Q Consensus       175 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~-----~~~a~~~~~~~~~~~~~~  247 (544)
                      .                 +.+..|..++..+...-...+...|...+..-...+  -     .+.+..+|+++.... +.
T Consensus       150 ~-----------------~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~  211 (493)
T 2uy1_A          150 L-----------------PIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YY  211 (493)
T ss_dssp             H-----------------HHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TT
T ss_pred             h-----------------HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CC
Confidence            0                 122333333333321100012223433333322110  0     234566777766543 45


Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcC------------C
Q 044352          248 DLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMG------------L  315 (544)
Q Consensus       248 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------------~  315 (544)
                      +...|...+..+.+.|+.++|..+|.+.+..   |....+......+...+   ..   ++.+.+.-            .
T Consensus       212 ~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~~y~~~~e~~---~~---~~~l~~~~~~~~~~~~~~~~~  282 (493)
T 2uy1_A          212 AEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSLYYGLVMDEE---AV---YGDLKRKYSMGEAESAEKVFS  282 (493)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHTTCT---HH---HHHHHHHTC----------CH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHHHHHhhcchh---HH---HHHHHHHHHhhccchhhhhcc
Confidence            5677777777777788888888888888766   33322221111111111   11   12221110            0


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc--cHHHHHHHHHHHHh-cCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 044352          316 HIDVFTGSALIDMYSKCGSLKDARTLFEITRIK--NVASWNAMIGCYGK-HGMVDSSIELFERMLEEGMRANEVTLISVL  392 (544)
Q Consensus       316 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  392 (544)
                      .....+|...+....+.++.+.|..+|++...+  +...|...+..-.. .++.+.|..+|+...+. .+-++..+...+
T Consensus       283 ~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A~~~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~-~~~~~~~~~~yi  361 (493)
T 2uy1_A          283 KELDLLRINHLNYVLKKRGLELFRKLFIELGNEGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLK-HPDSTLLKEEFF  361 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHHCHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHH-CTTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHhhCCCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHH-CCCCHHHHHHHH
Confidence            112345667777777788899999999988433  23344433332222 33699999999999886 333455566667


Q ss_pred             HHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhC
Q 044352          393 SACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQV  447 (544)
Q Consensus       393 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  447 (544)
                      ......|+.+.|..+|+.+.      .....|...+..-...|+.+.+..++++.
T Consensus       362 d~e~~~~~~~~aR~l~er~~------k~~~lw~~~~~fE~~~G~~~~~r~v~~~~  410 (493)
T 2uy1_A          362 LFLLRIGDEENARALFKRLE------KTSRMWDSMIEYEFMVGSMELFRELVDQK  410 (493)
T ss_dssp             HHHHHHTCHHHHHHHHHHSC------CBHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH------HHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            77778899999999998862      25677888887777889999998888765

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.13  E-value=2.5e-09  Score=97.54  Aligned_cols=219  Identities=9%  Similarity=-0.050  Sum_probs=144.7

Q ss_pred             CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 044352          262 SKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTL  341 (544)
Q Consensus       262 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  341 (544)
                      .|++++|.+++++..+.. +..         .+...++++.|...|..+               +..|...|++++|...
T Consensus         4 ~~~~~eA~~~~~~a~k~~-~~~---------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~   58 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL-KTS---------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDA   58 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH-CCC---------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc-ccc---------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHH
Confidence            355666666666655431 110         011135666666555543               3455566777777666


Q ss_pred             HHhcCCc-----c----HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC--HHHHHHHHHHHhcCCchHHHHHH
Q 044352          342 FEITRIK-----N----VASWNAMIGCYGKHGMVDSSIELFERMLEEGM---RAN--EVTLISVLSACSHGGLVEKGLEI  407 (544)
Q Consensus       342 ~~~~~~~-----~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~--~~~~~~l~~~~~~~~~~~~a~~~  407 (544)
                      |.+...-     +    ..+|+.+...|...|++++|+..|++.++.-.   .+.  ..++..+..+|.. |++++|+..
T Consensus        59 ~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~  137 (307)
T 2ifu_A           59 YLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHL  137 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHH
Confidence            6544421     1    23677888888889999999999988765310   121  3467778888888 999999999


Q ss_pred             HHHHHHHhCCCC----chhHHHHHHHHHHhcCCHHHHHHHHHhCC----CCCC----hhHHHHHHHHHhhcCChHHHHHH
Q 044352          408 FRSMKERYGVKI----SKEHYACVVDMLCRSGRMVEAYDLLRQVP----MYVT----NSMAGAFRNGCNIHGRRDLAVTM  475 (544)
Q Consensus       408 ~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~g~~~~A~~~  475 (544)
                      |++..+...-..    ...++..++.+|.+.|++++|+..|+++.    ..+.    ...+..++.++...|++++|+..
T Consensus       138 ~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~  217 (307)
T 2ifu_A          138 YQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKC  217 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            998876421111    14578888999999999999999998863    1111    22556666677788999999999


Q ss_pred             HHHHHHcCCCCchh-----HHHHHHHHHhcCChHHHHH
Q 044352          476 GEEFFEMGLRKPDG-----FVMLSNICAADGEWHEAEN  508 (544)
Q Consensus       476 ~~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~A~~  508 (544)
                      |++++ ++|.....     +..++.++ ..|+.+.+.+
T Consensus       218 ~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          218 VRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            99999 88876543     34455555 5677766655

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.12  E-value=7e-10  Score=94.76  Aligned_cols=156  Identities=7%  Similarity=-0.016  Sum_probs=114.2

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHH----------------HHHHHhcCCchHHHHHHHHHHHHHhCCCC
Q 044352          357 IGCYGKHGMVDSSIELFERMLEEGMRA-NEVTLIS----------------VLSACSHGGLVEKGLEIFRSMKERYGVKI  419 (544)
Q Consensus       357 ~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  419 (544)
                      ...+...|++++|+..|++.+..  .| +...+..                +..++...|++++|+..|++..+.  .|.
T Consensus        11 g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~   86 (208)
T 3urz_A           11 VSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK--APN   86 (208)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCC
Confidence            33445555555555555555553  22 2333444                888899999999999999999885  355


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCC--hHHHHHHHHHHHHcCCCCchhHHHHHH
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGR--RDLAVTMGEEFFEMGLRKPDGFVMLSN  495 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~p~~~~~~~~l~~  495 (544)
                      +...+..++.+|...|++++|...|+++.  .+.+..++..++.+|...|+  .+.+...++++....| ....+..++.
T Consensus        87 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~a~~~~g~  165 (208)
T 3urz_A           87 NVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTK-MQYARYRDGL  165 (208)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCH-HHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCc-hhHHHHHHHH
Confidence            78899999999999999999999999874  45567889999888876653  4556667776654333 2235667788


Q ss_pred             HHHhcCChHHHHHHHHHHHhcC
Q 044352          496 ICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       496 ~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ++...|++++|+..|+++++..
T Consensus       166 ~~~~~~~~~~A~~~~~~al~l~  187 (208)
T 3urz_A          166 SKLFTTRYEKARNSLQKVILRF  187 (208)
T ss_dssp             HHHHHHTHHHHHHHHHHHTTTS
T ss_pred             HHHHccCHHHHHHHHHHHHHhC
Confidence            9999999999999999998754

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.12  E-value=2e-08  Score=89.97  Aligned_cols=149  Identities=11%  Similarity=0.071  Sum_probs=71.5

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchH--HHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC-----
Q 044352          364 GMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVE--KGLEIFRSMKERYGVKISKEHYACVVDMLCRSGR-----  436 (544)
Q Consensus       364 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-----  436 (544)
                      +++++++.+++++.+.. +-|..++..-...+...|.++  +++++++++.+.  .+-+...|+.-..++...|+     
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~  200 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDN  200 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhh
Confidence            44455555555555431 334444444444444444444  555555555442  22333444444444444443     


Q ss_pred             -HHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCCh-HHHHHHHHHHHHcC---CCCchhHHHHHHHHHhcCChHHHHHH
Q 044352          437 -MVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRR-DLAVTMGEEFFEMG---LRKPDGFVMLSNICAADGEWHEAENL  509 (544)
Q Consensus       437 -~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~  509 (544)
                       ++++++.++++.  .+.+..+|+.+...+.+.|+. +.+..+.+++++++   |.++.++..++.+|.+.|+.++|+++
T Consensus       201 ~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          201 TIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence             455555554432  334455555555555444442 22334444444443   55555555555555555555556555


Q ss_pred             HHHHHh
Q 044352          510 RKIMKE  515 (544)
Q Consensus       510 ~~~~~~  515 (544)
                      ++.+.+
T Consensus       281 ~~~l~~  286 (306)
T 3dra_A          281 YDLLKS  286 (306)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            555543

>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=99.11  E-value=2.2e-10  Score=91.65  Aligned_cols=98  Identities=16%  Similarity=0.044  Sum_probs=71.8

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC  497 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  497 (544)
                      +...+..++..+...|++++|...|+++.  .+.+...|..++.++...|++++|+..|+++++++|+++.++..++.+|
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            34556666777777777777777777653  3446667777777777778888888888888888887777777788888


Q ss_pred             HhcCChHHHHHHHHHHHhcC
Q 044352          498 AADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       498 ~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ...|++++|+..|+++++..
T Consensus       100 ~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHC
Confidence            88888888888777777643

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.08  E-value=3.3e-09  Score=91.03  Aligned_cols=130  Identities=8%  Similarity=-0.116  Sum_probs=100.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 044352          351 ASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDM  430 (544)
Q Consensus       351 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  430 (544)
                      ..+..+...+...|++++|+..|++..    .|+..++..+..++...|++++|...+++..+.  .+.+...+..++.+
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~   80 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGML   80 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHH
Confidence            345667777888888888888888763    567788888888888888888888888888774  34566778888888


Q ss_pred             HHhcCCHHHHHHHHHhCC--CCCCh----------------hHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC
Q 044352          431 LCRSGRMVEAYDLLRQVP--MYVTN----------------SMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK  486 (544)
Q Consensus       431 ~~~~g~~~~A~~~~~~~~--~~~~~----------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  486 (544)
                      |...|++++|.+.|+++.  .+.+.                ..+..++.++...|++++|...++++++++|.+
T Consensus        81 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           81 YYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            888888888888887763  22222                567778888888888888888888888888865

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.07  E-value=2e-09  Score=96.96  Aligned_cols=160  Identities=9%  Similarity=-0.065  Sum_probs=96.6

Q ss_pred             ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHH
Q 044352           43 DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIV  119 (544)
Q Consensus        43 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l  119 (544)
                      |.+.. .+..++..+...|++++|+..|+++.   |.+...+..+...+...|++++|+..++++...  .|+.......
T Consensus       114 p~~~~-~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEE-LXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLV  190 (287)
T ss_dssp             CCHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHH
T ss_pred             CCchh-hHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHH
Confidence            33444 56666666666666666666666654   445556666666666666666666666666553  3333322222


Q ss_pred             -HHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccC--CC---hhhHHHHHHHHhccC
Q 044352          120 -LKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFE--RD---VVSWTSMISGYCNVS  193 (544)
Q Consensus       120 -l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~---~~~~~~l~~~~~~~~  193 (544)
                       ...+...++.+.|...+++..... |.+...+..+..++...|++++|...|.++.+  |+   ...+..++..+...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence             222445555666666666666654 55566666667777777777777777766644  22   445666777777777


Q ss_pred             ChhHHHHHHHHHH
Q 044352          194 KVDEAVVLFERMK  206 (544)
Q Consensus       194 ~~~~a~~~~~~~~  206 (544)
                      +.++|...|++..
T Consensus       270 ~~~~a~~~~r~al  282 (287)
T 3qou_A          270 TGDALASXYRRQL  282 (287)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            7777776666544

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.07  E-value=2.5e-08  Score=90.21  Aligned_cols=162  Identities=9%  Similarity=-0.043  Sum_probs=122.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCHH----HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc----hhHH
Q 044352          354 NAMIGCYGKHGMVDSSIELFERMLEEGM-RANEV----TLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS----KEHY  424 (544)
Q Consensus       354 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~  424 (544)
                      ...+..+...|++++|...+++...... .|+..    .+..+...+...|++++|+..++++.+.....++    ..++
T Consensus        79 ~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 3u3w_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            3346677888999999999999887421 22211    2334666677788999999999998873122222    2368


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhCC-----CCCC----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC------chh
Q 044352          425 ACVVDMLCRSGRMVEAYDLLRQVP-----MYVT----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK------PDG  489 (544)
Q Consensus       425 ~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~  489 (544)
                      +.++.+|...|++++|...|+++.     .+.+    ..++..++..|...|++++|+..+++++++.+..      +.+
T Consensus       159 ~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~  238 (293)
T 3u3w_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHH
Confidence            889999999999999999988763     1112    2367888999999999999999999999876433      568


Q ss_pred             HHHHHHHHHhcCC-hHHHHHHHHHHHh
Q 044352          490 FVMLSNICAADGE-WHEAENLRKIMKE  515 (544)
Q Consensus       490 ~~~l~~~~~~~g~-~~~A~~~~~~~~~  515 (544)
                      +..+|.++.+.|+ +++|++.++++++
T Consensus       239 ~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          239 YYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            9999999999995 6999999999875

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.06  E-value=1.4e-09  Score=99.16  Aligned_cols=197  Identities=7%  Similarity=-0.063  Sum_probs=150.3

Q ss_pred             ccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHH
Q 044352          296 LTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFER  375 (544)
Q Consensus       296 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  375 (544)
                      ..|++++|..++++..+.... .         .+...++++.|...|..           .+..|...|++++|...+.+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~-~---------~~~~~~~~~~A~~~~~~-----------a~~~~~~~g~~~~A~~~~~~   61 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKT-S---------FMKWKPDYDSAASEYAK-----------AAVAFKNAKQLEQAKDAYLQ   61 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCC-C---------SSSCSCCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccc-c---------ccCCCCCHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHH
Confidence            357788888888887764321 1         01114788888887765           35678889999999999998


Q ss_pred             HHHcC--C-CC--CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCC--C--chhHHHHHHHHHHhcCCHHHHHHHHHh
Q 044352          376 MLEEG--M-RA--NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVK--I--SKEHYACVVDMLCRSGRMVEAYDLLRQ  446 (544)
Q Consensus       376 ~~~~~--~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~--~~~~~~~l~~~~~~~g~~~~A~~~~~~  446 (544)
                      ..+..  . .+  -..++..+...|...|++++|+..+++..+.+.-.  +  ...++..++.+|.. |++++|++.|++
T Consensus        62 al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~  140 (307)
T 2ifu_A           62 EAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQ  140 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHH
Confidence            87631  1 11  13478888889999999999999999987643211  1  14577888999988 999999999988


Q ss_pred             CC----CCCC----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCc------hhHHHHHHHHHhcCChHHHHHHHHH
Q 044352          447 VP----MYVT----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKP------DGFVMLSNICAADGEWHEAENLRKI  512 (544)
Q Consensus       447 ~~----~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~A~~~~~~  512 (544)
                      +.    ...+    ..++..++..+...|++++|+..|++++++.|.+.      .++..++.++...|++++|+..|++
T Consensus       141 Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~  220 (307)
T 2ifu_A          141 AAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRE  220 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            63    1111    45778889999999999999999999999876543      3677788899999999999999999


Q ss_pred             HH
Q 044352          513 MK  514 (544)
Q Consensus       513 ~~  514 (544)
                      .+
T Consensus       221 al  222 (307)
T 2ifu_A          221 SY  222 (307)
T ss_dssp             HT
T ss_pred             Hh
Confidence            88

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.06  E-value=2.9e-09  Score=106.34  Aligned_cols=146  Identities=8%  Similarity=-0.067  Sum_probs=75.0

Q ss_pred             CchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHH
Q 044352          298 GSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFE  374 (544)
Q Consensus       298 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~  374 (544)
                      |++++|...+++..+.. +.+...+..+...+...|++++|...+++..+   .+...+..+..++...|++++|.+.++
T Consensus         3 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~   81 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQ   81 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            45566666666655543 22455556666666666666666666665443   234556666666666666666666666


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhc---CCHHHHHHHHHhC
Q 044352          375 RMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRS---GRMVEAYDLLRQV  447 (544)
Q Consensus       375 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~  447 (544)
                      +..+.. +.+...+..+..++...|++++|.+.+++..+.  .+.+...+..++.++...   |++++|.+.++++
T Consensus        82 ~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           82 QASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            666542 334555666666666666666666666666553  233445556666666666   6666666666554

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.06  E-value=1.9e-07  Score=83.55  Aligned_cols=194  Identities=5%  Similarity=-0.044  Sum_probs=140.3

Q ss_pred             chHHHHHHHHHHHHcCCCCCHHHHHHHHHHH----Hhc---CCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChH-
Q 044352          299 SIQIGREIHALVCRMGLHIDVFTGSALIDMY----SKC---GSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVD-  367 (544)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~-  367 (544)
                      +++++...++.+....+. +..+|+.-..++    ...   +++++++.+++.+..   ++..+|+.-..++.+.|.++ 
T Consensus        84 ~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~  162 (306)
T 3dra_A           84 NLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHND  162 (306)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTC
T ss_pred             cHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccCh
Confidence            455555555554444322 333333333333    333   667777777776663   46667777777777788887 


Q ss_pred             -HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc------hHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH-
Q 044352          368 -SSIELFERMLEEGMRANEVTLISVLSACSHGGL------VEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVE-  439 (544)
Q Consensus       368 -~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-  439 (544)
                       ++++.++++++.. +-|...|+.-...+...+.      ++++++.++++...  .+-|...|+.+...+.+.|+..+ 
T Consensus       163 ~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~--~p~n~SaW~y~~~ll~~~~~~~~~  239 (306)
T 3dra_A          163 AKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVK--CPQNPSTWNYLLGIHERFDRSITQ  239 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCCGGG
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHh--CCCCccHHHHHHHHHHhcCCChHH
Confidence             9999999999874 4577778777777777776      89999999998874  46678888888888988888554 


Q ss_pred             HHHHHHhCCC-----CCChhHHHHHHHHHhhcCChHHHHHHHHHHHH-cCCCCchhHHHHHHH
Q 044352          440 AYDLLRQVPM-----YVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFE-MGLRKPDGFVMLSNI  496 (544)
Q Consensus       440 A~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~~l~~~  496 (544)
                      +.++..++..     ..++.++..++.++.+.|+.++|+++++.+.+ .+|.....|...+..
T Consensus       240 ~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~~Dpir~~yW~~~~~~  302 (306)
T 3dra_A          240 LEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSKYNPIRSNFWDYQISK  302 (306)
T ss_dssp             GHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHHHT
T ss_pred             HHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhccChHHHHHHHHHHhh
Confidence            5567776641     44677888999999999999999999999997 799888888876653

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.04  E-value=4e-09  Score=86.31  Aligned_cols=127  Identities=9%  Similarity=-0.099  Sum_probs=98.5

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHh
Q 044352          387 TLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCN  464 (544)
Q Consensus       387 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  464 (544)
                      .+..+...+...|++++|...+++..+.  .+.+...+..++.++...|++++|.+.++++.  .+.+...+..++.++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            4555566666777777777777777663  24456677777777777888888887777653  3446678888888999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCchhHHHHHHH--HHhcCChHHHHHHHHHHHh
Q 044352          465 IHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI--CAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       465 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~A~~~~~~~~~  515 (544)
                      ..|++++|+..++++++.+|.++.++..++.+  +.+.|++++|+..+++...
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            99999999999999999999999888555544  8889999999999988754

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.04  E-value=1.7e-08  Score=91.42  Aligned_cols=163  Identities=9%  Similarity=-0.034  Sum_probs=119.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH------HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc----h
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANE------VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS----K  421 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~  421 (544)
                      .+...+..+...|++++|.+.+++..+.. +...      ..+..+...+...|++++|...+++..+......+    .
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKE-EYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTC-CCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccc-cCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            44456667788888888888888877752 2122      12334555667788999999988888653111111    3


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhCC----CCCC-----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC------C
Q 044352          422 EHYACVVDMLCRSGRMVEAYDLLRQVP----MYVT-----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR------K  486 (544)
Q Consensus       422 ~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~------~  486 (544)
                      .+++.++..|...|++++|...++++.    ..++     ..++..++..|...|++++|+..+++++++.+.      -
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            477888889999999999998887753    1112     257888888999999999999999999886532      1


Q ss_pred             chhHHHHHHHHHhcCChHHH-HHHHHHHHh
Q 044352          487 PDGFVMLSNICAADGEWHEA-ENLRKIMKE  515 (544)
Q Consensus       487 ~~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  515 (544)
                      ..++..+|.+|.+.|++++| ..++++...
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            56788999999999999999 777888764

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.01  E-value=1.2e-08  Score=88.19  Aligned_cols=185  Identities=10%  Similarity=-0.043  Sum_probs=133.4

Q ss_pred             CHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--c-cH---HHHH
Q 044352          283 NNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHI--DVFTGSALIDMYSKCGSLKDARTLFEITRI--K-NV---ASWN  354 (544)
Q Consensus       283 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~---~~~~  354 (544)
                      +...+......+...|++++|...|+.+.+..+..  ....+..++.++.+.|++++|+..|+++..  | +.   ..+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            34556677788899999999999999999875332  245788889999999999999999998764  2 22   2555


Q ss_pred             HHHHHHHh------------------cCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCchHHHHHHHHHHHHHh
Q 044352          355 AMIGCYGK------------------HGMVDSSIELFERMLEEGMRANE-VTLISVLSACSHGGLVEKGLEIFRSMKERY  415 (544)
Q Consensus       355 ~l~~~~~~------------------~g~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  415 (544)
                      .+..++..                  .|++++|+..|+++++.  .|+. ......              ..+..+... 
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~--------------~~l~~~~~~-  145 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDAT--------------KRLVFLKDR-  145 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHH--------------HHHHHHHHH-
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHH--------------HHHHHHHHH-
Confidence            56666554                  57899999999999985  4443 222211              111111110 


Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch
Q 044352          416 GVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVT----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD  488 (544)
Q Consensus       416 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  488 (544)
                          .......++..|.+.|++++|+..|+++. ..|+    ..++..++.++.+.|++++|+..++.+....|++..
T Consensus       146 ----~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~  219 (225)
T 2yhc_A          146 ----LAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLE  219 (225)
T ss_dssp             ----HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCC
T ss_pred             ----HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchh
Confidence                01123456788999999999999999874 2233    256888889999999999999999999998887654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.01  E-value=2.4e-09  Score=85.04  Aligned_cols=95  Identities=11%  Similarity=-0.061  Sum_probs=63.3

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHh
Q 044352          422 EHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAA  499 (544)
Q Consensus       422 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  499 (544)
                      ..+..++..+.+.|++++|...|+++.  .+.+...|..++.++...|++++|+..|+++++++|+++.++..++.+|..
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            344555566666666666666666553  344556666666677777777777777777777777777777777777777


Q ss_pred             cCChHHHHHHHHHHHhc
Q 044352          500 DGEWHEAENLRKIMKEK  516 (544)
Q Consensus       500 ~g~~~~A~~~~~~~~~~  516 (544)
                      .|++++|+..|+++++.
T Consensus        99 ~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           99 LGDLDGAESGFYSARAL  115 (142)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            77777777777776654

>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=99.01  E-value=1.5e-09  Score=90.12  Aligned_cols=121  Identities=6%  Similarity=0.056  Sum_probs=52.4

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHH-HHhcCCH--HH
Q 044352          363 HGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDM-LCRSGRM--VE  439 (544)
Q Consensus       363 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~--~~  439 (544)
                      .|++++|...+++..... +.+...+..+...+...|++++|...|+++.+.  .+.+...+..++.+ +...|++  ++
T Consensus        23 ~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             ----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             ccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcchHH
Confidence            445555555555554431 234444555555555555555555555555442  12233344444444 3344444  44


Q ss_pred             HHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC
Q 044352          440 AYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK  486 (544)
Q Consensus       440 A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  486 (544)
                      |...++++.  .+.+...+..++..+...|++++|+..++++++.+|++
T Consensus       100 A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~  148 (177)
T 2e2e_A          100 TRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPR  148 (177)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTT
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCC
Confidence            444444432  22223344444444444444444444444444444443

>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=99.00  E-value=3.6e-09  Score=82.06  Aligned_cols=97  Identities=8%  Similarity=-0.106  Sum_probs=68.1

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          421 KEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       421 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      ...+..++..+.+.|++++|...|+++.  .+.+...+..++.++...|++++|+..++++++++|.++.++..++.++.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            3455566666667777777777776653  34456667777777777777777777777777777777777777777777


Q ss_pred             hcCChHHHHHHHHHHHhcC
Q 044352          499 ADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       499 ~~g~~~~A~~~~~~~~~~~  517 (544)
                      ..|++++|+..|+++++..
T Consensus        84 ~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           84 AVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhC
Confidence            7777777777777776543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.99  E-value=7.5e-09  Score=80.67  Aligned_cols=118  Identities=9%  Similarity=-0.088  Sum_probs=89.0

Q ss_pred             HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHH
Q 044352          385 EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNG  462 (544)
Q Consensus       385 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  462 (544)
                      ...+..+...+...|+++.|...++++...  .+.+...+..++.++...|++++|.+.++++.  .+.+...+..++..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            345566666667777777777777777653  23456667777777777777777777777653  34456677888888


Q ss_pred             HhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChH
Q 044352          463 CNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWH  504 (544)
Q Consensus       463 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  504 (544)
                      +...|++++|...++++++.+|.++.++..++.++.+.|+++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~  131 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREAP  131 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTCC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcCC
Confidence            899999999999999999999999999999999998888753

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.98  E-value=1.7e-09  Score=86.32  Aligned_cols=107  Identities=12%  Similarity=-0.016  Sum_probs=65.3

Q ss_pred             HHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhccc
Q 044352           34 QVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIY  109 (544)
Q Consensus        34 ~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  109 (544)
                      ..++++++. |.+.. ++..++..+.+.|++++|+..|+++.   |.++..|..+..++...|++++|+..|++..+...
T Consensus        23 ~~l~~al~l~p~~~~-~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P  101 (151)
T 3gyz_A           23 ATLKDINAIPDDMMD-DIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK  101 (151)
T ss_dssp             CCTGGGCCSCHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS
T ss_pred             CCHHHHhCCCHHHHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC
Confidence            344444555 44444 66666666666666666666666654   45556666666666666666666666666666321


Q ss_pred             ccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHc
Q 044352          110 RCNKFTFSIVLKACVGLLDIKKGKQVHAVATQM  142 (544)
Q Consensus       110 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  142 (544)
                       .+...|..+..++...|++++|...|+...+.
T Consensus       102 -~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          102 -NDYTPVFHTGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             -SCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             13455666666666666666666666666665

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.98  E-value=6.9e-09  Score=81.21  Aligned_cols=116  Identities=5%  Similarity=-0.086  Sum_probs=69.7

Q ss_pred             HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHH
Q 044352          385 EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNG  462 (544)
Q Consensus       385 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  462 (544)
                      ...+..+...+...|++++|...++++.+  ..+.+...+..++.++...|++++|...++++.  .+.+...+..++.+
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIK--RNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHT--TCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            33444455555555555555555555543  122344455555555555555555555555442  23345566667777


Q ss_pred             HhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCC
Q 044352          463 CNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGE  502 (544)
Q Consensus       463 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  502 (544)
                      +...|++++|+..++++++.+|.++.++..++.++.+.|+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            7777778888888888877777777777777777766653

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.97  E-value=1.3e-07  Score=80.70  Aligned_cols=170  Identities=11%  Similarity=-0.021  Sum_probs=99.7

Q ss_pred             HHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccC----chHHHHHHHH
Q 044352          233 AFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTG----SIQIGREIHA  308 (544)
Q Consensus       233 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~  308 (544)
                      |++.|++..+.   -++..+..+...|...+++++|+.+|++..+.|   +...+..+...+.. +    ++++|...++
T Consensus         5 A~~~~~~aa~~---g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            5 PGSQYQQQAEA---GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             TTHHHHHHHHT---TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHC---CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            34444444443   244455555555555555556665555555443   33444444444444 4    5566666666


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHhcCCcc-----HHHHHHHHHHHHh----cCChHHHHHHHHH
Q 044352          309 LVCRMGLHIDVFTGSALIDMYSK----CGSLKDARTLFEITRIKN-----VASWNAMIGCYGK----HGMVDSSIELFER  375 (544)
Q Consensus       309 ~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~-----~~~~~~l~~~~~~----~g~~~~A~~~~~~  375 (544)
                      ...+.+   ++..+..+...|..    .+++++|..+|++....+     +..+..|...|..    .+++++|+..|++
T Consensus        78 ~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           78 KAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            555543   44555566666655    667777777777666532     4567777777776    6677888888888


Q ss_pred             HHHcCCCCCHHHHHHHHHHHhcC-C-----chHHHHHHHHHHHHH
Q 044352          376 MLEEGMRANEVTLISVLSACSHG-G-----LVEKGLEIFRSMKER  414 (544)
Q Consensus       376 ~~~~~~~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~  414 (544)
                      ..+.  ..+...+..+...|... |     ++++|..+|++..+.
T Consensus       155 A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~  197 (212)
T 3rjv_A          155 SSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLE  197 (212)
T ss_dssp             HHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHH
T ss_pred             HHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHc
Confidence            7774  23444555566665432 2     778888888777665

>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=98.97  E-value=2.3e-08  Score=85.73  Aligned_cols=124  Identities=9%  Similarity=-0.042  Sum_probs=91.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc
Q 044352          321 TGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGL  400 (544)
Q Consensus       321 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  400 (544)
                      .+..+...+...|++++|...|+....++...|..+..++...|++++|+..+++..... +.+...+..+..++...|+
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~   86 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEK   86 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHccc
Confidence            345566677778888888888887777777778888888888888888888888877752 4466677777778888888


Q ss_pred             hHHHHHHHHHHHHHhCCCCc----------------hhHHHHHHHHHHhcCCHHHHHHHHHhC
Q 044352          401 VEKGLEIFRSMKERYGVKIS----------------KEHYACVVDMLCRSGRMVEAYDLLRQV  447 (544)
Q Consensus       401 ~~~a~~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~g~~~~A~~~~~~~  447 (544)
                      +++|...|+++.+.  .+.+                ...+..++.+|...|++++|.+.|+++
T Consensus        87 ~~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  147 (213)
T 1hh8_A           87 YDLAIKDLKEALIQ--LRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALA  147 (213)
T ss_dssp             HHHHHHHHHHHHHT--TTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            88888888887763  2222                256777777888888888888888775

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.96  E-value=5.2e-09  Score=96.56  Aligned_cols=95  Identities=7%  Similarity=-0.147  Sum_probs=83.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          421 KEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       421 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      ...|..++.+|.+.|++++|+..++++.  .+.+..++..++.+|...|++++|+..|+++++++|.++.++..++.++.
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  275 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQ  275 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            4677888888889999999998888874  45567889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHH-HHHHHHHHh
Q 044352          499 ADGEWHEA-ENLRKIMKE  515 (544)
Q Consensus       499 ~~g~~~~A-~~~~~~~~~  515 (544)
                      +.|++++| ...|++|.+
T Consensus       276 ~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          276 RIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            99999999 446676653

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

Probab=98.95  E-value=1.4e-08  Score=78.40  Aligned_cols=115  Identities=14%  Similarity=0.101  Sum_probs=83.0

Q ss_pred             HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHH
Q 044352          385 EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNG  462 (544)
Q Consensus       385 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  462 (544)
                      ...+..+...+...|++++|...++++.+.  .+.+...+..++..+...|++++|..+++++.  .+.+...+..++..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            345566666666777777777777776653  23445566667777777777777777776653  34456677778888


Q ss_pred             HhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcC
Q 044352          463 CNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG  501 (544)
Q Consensus       463 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  501 (544)
                      +...|++++|...++++++.+|.++.++..++.++...|
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            888889999999999998888888888888888776654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.95  E-value=3.4e-09  Score=81.33  Aligned_cols=95  Identities=7%  Similarity=-0.135  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhc
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAAD  500 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  500 (544)
                      .+..++..+.+.|++++|...|+++.  .+.+...|..++.++...|++++|+..|+++++++|+++.++..++.++...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            45667788889999999999998874  4557888999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHhcC
Q 044352          501 GEWHEAENLRKIMKEKN  517 (544)
Q Consensus       501 g~~~~A~~~~~~~~~~~  517 (544)
                      |++++|+..++++++.+
T Consensus        99 g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHC--
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            99999999999998654

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.94  E-value=2.8e-09  Score=95.68  Aligned_cols=192  Identities=8%  Similarity=-0.033  Sum_probs=128.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044352          318 DVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSA  394 (544)
Q Consensus       318 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  394 (544)
                      +...+..+...+...|++++|...|+....   .+...|..+..++...|++++|+..+++.++.. +.+...+..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            345566677777778888888888876552   356678888888888888888888888887752 4466778888888


Q ss_pred             HhcCCchHHHHHHHHHHHHHhCCCCch-hHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHH
Q 044352          395 CSHGGLVEKGLEIFRSMKERYGVKISK-EHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAV  473 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  473 (544)
                      +...|++++|...|++..+.   .|+. ..+...+....+..+...... ......+.+......+.. + ..|++++|+
T Consensus        82 ~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l~~-l-~~~~~~~A~  155 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYLTR-L-IAAEREREL  155 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHHHH-H-HHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHHHH-H-HHHHHHHHH
Confidence            88888888888888887664   1211 111111111111111111111 222233444444444432 2 368999999


Q ss_pred             HHHHHHHHcCCCCchhHHHHHHHHHhc-CChHHHHHHHHHHHhc
Q 044352          474 TMGEEFFEMGLRKPDGFVMLSNICAAD-GEWHEAENLRKIMKEK  516 (544)
Q Consensus       474 ~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~  516 (544)
                      +.++++++.+|++......+...+.+. +.+++|.++|+++.+.
T Consensus       156 ~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          156 EECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             TTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999999999998888888887777776 7899999999988764

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.93  E-value=2.5e-09  Score=85.44  Aligned_cols=107  Identities=10%  Similarity=-0.086  Sum_probs=87.2

Q ss_pred             CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHH
Q 044352          384 NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRN  461 (544)
Q Consensus       384 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~  461 (544)
                      +...+..+...+...|++++|...|+++...  .+.+...|..++.+|...|++++|...|+++.  .+.++..+..++.
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHH
Confidence            4456666777788888888888888888764  35567788888888888899999988888864  4556778889999


Q ss_pred             HHhhcCChHHHHHHHHHHHHcCCCCchhHHH
Q 044352          462 GCNIHGRRDLAVTMGEEFFEMGLRKPDGFVM  492 (544)
Q Consensus       462 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  492 (544)
                      ++...|++++|+..|+++++++|+++.....
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  128 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQELIANXPEFXEL  128 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHTTCGGGHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCcCCCcchHH
Confidence            9999999999999999999999988876443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.93  E-value=8.3e-09  Score=77.89  Aligned_cols=99  Identities=15%  Similarity=-0.015  Sum_probs=85.1

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC--CchhHHHHHH
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR--KPDGFVMLSN  495 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~  495 (544)
                      +...+..++..+...|++++|...++++.  .+.+...+..++..+...|++++|+..++++++.+|.  ++.++..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            45566777788888888888888887763  3456778888888999999999999999999999999  9999999999


Q ss_pred             HHHhc-CChHHHHHHHHHHHhcCC
Q 044352          496 ICAAD-GEWHEAENLRKIMKEKNV  518 (544)
Q Consensus       496 ~~~~~-g~~~~A~~~~~~~~~~~~  518 (544)
                      ++.+. |++++|++.++++.+...
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhccc
Confidence            99999 999999999999987654

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.93  E-value=1.1e-09  Score=92.85  Aligned_cols=169  Identities=9%  Similarity=-0.084  Sum_probs=101.9

Q ss_pred             HHHhcCCHHHHHHHHHhcCCc---cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHH
Q 044352          328 MYSKCGSLKDARTLFEITRIK---NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKG  404 (544)
Q Consensus       328 ~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  404 (544)
                      .....|+++.+.+.++.....   ....+..+...+...|++++|+..|++.+..  .|+...+...             
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~-------------   77 (198)
T 2fbn_A           13 GRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTEEWDDQ-------------   77 (198)
T ss_dssp             ---------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCTTCCCH-------------
T ss_pred             hhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--Hhcccccchh-------------
Confidence            334455666666555533321   2335666666677777777777777777663  1211000000             


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHc
Q 044352          405 LEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEM  482 (544)
Q Consensus       405 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  482 (544)
                        ....-..    ......+..++.+|...|++++|...++++.  .+.+..++..++.++...|++++|+..|++++++
T Consensus        78 --~~~~~~~----~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A           78 --ILLDKKK----NIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             --HHHHHHH----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             --hHHHHHH----HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence              0000000    0013567778888888888888888888764  4456778889999999999999999999999999


Q ss_pred             CCCCchhHHHHHHHHHhcCChHHHH-HHHHHHHhcC
Q 044352          483 GLRKPDGFVMLSNICAADGEWHEAE-NLRKIMKEKN  517 (544)
Q Consensus       483 ~p~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~~~  517 (544)
                      +|.++.++..++.++...|+.+++. ..++.+...+
T Consensus       152 ~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          152 NPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             STTCHHHHHHHHHHHHHHHHHHC-------------
T ss_pred             CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            9999999999999999999998888 5666666544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.91  E-value=8.6e-09  Score=84.21  Aligned_cols=111  Identities=9%  Similarity=-0.144  Sum_probs=92.4

Q ss_pred             CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHH
Q 044352          384 NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRN  461 (544)
Q Consensus       384 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~  461 (544)
                      +...+..+...+...|++++|+..|++..+.  .+.+...+..++.+|.+.|++++|+..|+++.  .+.+...+..++.
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            4567788888899999999999999998874  34567888889999999999999999998874  4556778888999


Q ss_pred             HHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 044352          462 GCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI  496 (544)
Q Consensus       462 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  496 (544)
                      ++...|++++|+..|+++++++|+++..+...+..
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  122 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRGLE  122 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            99999999999999999999999988866655443

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.91  E-value=6.6e-09  Score=80.53  Aligned_cols=95  Identities=7%  Similarity=-0.111  Sum_probs=73.9

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch-------hHHH
Q 044352          422 EHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD-------GFVM  492 (544)
Q Consensus       422 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-------~~~~  492 (544)
                      ..+..++..+.+.|++++|++.|+++.  .+.+..++..++.+|...|++++|+..++++++++|+++.       ++..
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            456677778888888888888887763  4455677888888888888888888888888888876543       5667


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhc
Q 044352          493 LSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       493 l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      +|.++...|++++|++.|++.++.
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh
Confidence            778888888888888888887764

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.89  E-value=1.9e-08  Score=79.20  Aligned_cols=99  Identities=9%  Similarity=-0.100  Sum_probs=70.9

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 044352          419 ISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI  496 (544)
Q Consensus       419 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  496 (544)
                      .+...+..++..+...|++++|...|+++.  .+.+...+..++.++...|++++|+..++++++++|.++.++..++.+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            345566666666777777777777766653  344566677777777777778888888888877777777777778888


Q ss_pred             HHhcCChHHHHHHHHHHHhcC
Q 044352          497 CAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       497 ~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +...|++++|+..++++++..
T Consensus        87 ~~~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHC
Confidence            888888888887777776543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.88  E-value=2.7e-08  Score=86.90  Aligned_cols=122  Identities=9%  Similarity=-0.071  Sum_probs=55.2

Q ss_pred             HHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCCh----hHHHHHHHHHhhcC
Q 044352          392 LSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTN----SMAGAFRNGCNIHG  467 (544)
Q Consensus       392 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~l~~~~~~~g  467 (544)
                      ...+...|++++|.++|+.+...   .|+......+...+.+.|++++|+..|+.....+++    ..+..++.++...|
T Consensus       109 A~~L~~~g~y~eA~~~l~~~~~~---~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~LG  185 (282)
T 4f3v_A          109 AACEAAQGNYADAMEALEAAPVA---GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANLA  185 (282)
T ss_dssp             HHHHHHHTCHHHHHHHHTSSCCT---TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHCC
Confidence            33444455555555555444321   122223333444445555555555555443322211    23444444555555


Q ss_pred             ChHHHHHHHHHHHHcC--CC-CchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          468 RRDLAVTMGEEFFEMG--LR-KPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       468 ~~~~A~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      ++++|+..|+++....  |. .+.+...++.++.+.|+.++|...|+++...
T Consensus       186 ~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          186 LFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             CHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            5555555555554322  22 2234445555555555555555555555443

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.85  E-value=3e-08  Score=76.75  Aligned_cols=112  Identities=6%  Similarity=-0.179  Sum_probs=86.8

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHH
Q 044352          386 VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGC  463 (544)
Q Consensus       386 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~  463 (544)
                      ..+......+...|++++|+..|++..+.  .+.+...+..++.+|.+.|++++|...++++.  .+.+...+..++.++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            45566666777778888888888777764  34456777778888888888888888887763  445677888889999


Q ss_pred             hhcCChHHHHHHHHHHHHcC------CCCchhHHHHHHHHHh
Q 044352          464 NIHGRRDLAVTMGEEFFEMG------LRKPDGFVMLSNICAA  499 (544)
Q Consensus       464 ~~~g~~~~A~~~~~~~~~~~------p~~~~~~~~l~~~~~~  499 (544)
                      ...|++++|+..|+++++++      |.++.++..+..+..+
T Consensus        83 ~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~~  124 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKASQQ  124 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHHh
Confidence            99999999999999999999      8888888877766543

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.85  E-value=3.3e-08  Score=81.88  Aligned_cols=123  Identities=10%  Similarity=0.053  Sum_probs=103.5

Q ss_pred             HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHH-HhhcCCh--
Q 044352          395 CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNG-CNIHGRR--  469 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~-~~~~g~~--  469 (544)
                      +...|++++|...+++..+.  .+.+...+..++.+|...|++++|...|+++.  .+.+...+..++.+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcch
Confidence            35678899999999998874  35577889999999999999999999999874  34567788888888 7789998  


Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 044352          470 DLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQ  519 (544)
Q Consensus       470 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  519 (544)
                      ++|+..++++++.+|.++.++..++.++...|++++|+..++++++....
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~  147 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSP  147 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCT
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCC
Confidence            99999999999999999999999999999999999999999999987543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.84  E-value=2.4e-08  Score=79.26  Aligned_cols=110  Identities=9%  Similarity=-0.095  Sum_probs=85.1

Q ss_pred             HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHH
Q 044352          385 EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNG  462 (544)
Q Consensus       385 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  462 (544)
                      ...+..+...+...|++++|...|+++...  .+.+...|..++.+|...|++++|...|+++.  .+.++..+..++.+
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   95 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Confidence            345555666777788888888888887764  34566777788888888888888888888764  45567788888999


Q ss_pred             HhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 044352          463 CNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI  496 (544)
Q Consensus       463 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  496 (544)
                      +...|++++|+..|+++++++|+++........+
T Consensus        96 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~  129 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARALAAAQPAHEALAARA  129 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTCGGGHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCcchHHHHHHH
Confidence            9999999999999999999999888776554433

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.83  E-value=6.5e-08  Score=73.61  Aligned_cols=107  Identities=13%  Similarity=-0.001  Sum_probs=49.2

Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhh
Q 044352          388 LISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNI  465 (544)
Q Consensus       388 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~  465 (544)
                      +..+...+...|++++|...+++....  .+.+...+..++.++...|++++|...++++.  .+.+...+..++.++..
T Consensus         7 ~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~   84 (118)
T 1elw_A            7 LKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEF   84 (118)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            333444444445555555554444432  12233344444444444444444444444432  12233444445555555


Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 044352          466 HGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI  496 (544)
Q Consensus       466 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  496 (544)
                      .|++++|...++++++.+|.++.++..++.+
T Consensus        85 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           85 LNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             TTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            5555555555555555555555544444433

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.83  E-value=4.5e-08  Score=74.53  Aligned_cols=98  Identities=8%  Similarity=-0.027  Sum_probs=88.9

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC  497 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  497 (544)
                      ....+..++..+...|++++|...++++.  .+.+...+..++..+...|++++|...++++++.+|.++.++..++.++
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            35567888899999999999999999874  4557788899999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHhcC
Q 044352          498 AADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       498 ~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ...|++++|...++++.+.+
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHhhHHHHHHHHHHHHHcC
Confidence            99999999999999998754

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.83  E-value=6.2e-07  Score=81.00  Aligned_cols=159  Identities=9%  Similarity=-0.037  Sum_probs=118.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCCc-----cH----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC----HHHHHH
Q 044352          325 LIDMYSKCGSLKDARTLFEITRIK-----NV----ASWNAMIGCYGKHGMVDSSIELFERMLEEGMR-AN----EVTLIS  390 (544)
Q Consensus       325 l~~~~~~~~~~~~A~~~~~~~~~~-----~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~  390 (544)
                      .+..+...|++++|..+++.....     +.    ..+..+...+...|++++|+..++++...... ++    ..+++.
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            456677888999998888775531     11    13344666777788999999999999884222 22    236888


Q ss_pred             HHHHHhcCCchHHHHHHHHHHHHHhC----CCC-chhHHHHHHHHHHhcCCHHHHHHHHHhCC-------CCCC-hhHHH
Q 044352          391 VLSACSHGGLVEKGLEIFRSMKERYG----VKI-SKEHYACVVDMLCRSGRMVEAYDLLRQVP-------MYVT-NSMAG  457 (544)
Q Consensus       391 l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~-~~~~~  457 (544)
                      +..+|...|++++|...++++.+...    ..+ ...++..++.+|.+.|++++|.+.++++.       ..+. ..++.
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            89999999999999999999875321    111 23477889999999999999999998763       1122 56788


Q ss_pred             HHHHHHhhcCC-hHHHHHHHHHHHHcC
Q 044352          458 AFRNGCNIHGR-RDLAVTMGEEFFEMG  483 (544)
Q Consensus       458 ~l~~~~~~~g~-~~~A~~~~~~~~~~~  483 (544)
                      .++.++...|+ +++|...+++++++.
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~i~  267 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASFFF  267 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHHH
Confidence            89999999995 699999999998743

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.82  E-value=9.5e-08  Score=83.44  Aligned_cols=140  Identities=11%  Similarity=-0.017  Sum_probs=99.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc--hhHHHHHHH
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS--KEHYACVVD  429 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~  429 (544)
                      .+..+...+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+.....  ..|.  ...+..++.
T Consensus       104 l~LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~--~d~~~~~~a~~~LG~  179 (282)
T 4f3v_A          104 ITMGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW--PDKFLAGAAGVAHGV  179 (282)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC--SCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc--CCcccHHHHHHHHHH
Confidence            3445566677778888888888777653  344335555555777888888888888755321  1111  346777888


Q ss_pred             HHHhcCCHHHHHHHHHhCCCC---C--ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 044352          430 MLCRSGRMVEAYDLLRQVPMY---V--TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI  496 (544)
Q Consensus       430 ~~~~~g~~~~A~~~~~~~~~~---~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  496 (544)
                      ++...|++++|+..|++....   |  ....+...+.++.+.|+.++|...|++++..+|. +.+...|...
T Consensus       180 al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~~~  250 (282)
T 4f3v_A          180 AAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALKDP  250 (282)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHHCT
T ss_pred             HHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHhCC
Confidence            888899999999888877322   3  2346777888899999999999999999999998 7766666443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.82  E-value=3.5e-08  Score=77.06  Aligned_cols=100  Identities=9%  Similarity=-0.051  Sum_probs=90.5

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHH
Q 044352          418 KISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSN  495 (544)
Q Consensus       418 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  495 (544)
                      +.+...+..++..+...|++++|...++++.  .+.+...+..++.++...|++++|+..++++++.+|.++.++..++.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            4456778889999999999999999999863  34467889999999999999999999999999999999999999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhcC
Q 044352          496 ICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       496 ~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ++.+.|++++|+..++++.+..
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~  114 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLD  114 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhhHHHHHHHHHHHHHhC
Confidence            9999999999999999998764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.81  E-value=5.1e-08  Score=79.51  Aligned_cols=98  Identities=10%  Similarity=0.003  Sum_probs=75.6

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC  497 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  497 (544)
                      +...+..++..+.+.|++++|++.|+++.  .+.+...+..++.+|...|++++|+..++++++++|.++.++..++.+|
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   89 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            45567777777888888888888887763  3446677777777888888888888888888888888888888888888


Q ss_pred             HhcCChHHHHHHHHHHHhcC
Q 044352          498 AADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       498 ~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ...|++++|+..|+++++..
T Consensus        90 ~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHhC
Confidence            88888888888888877654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.80  E-value=3e-07  Score=83.10  Aligned_cols=163  Identities=8%  Similarity=-0.056  Sum_probs=114.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC---ccH------HHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC--HH
Q 044352          321 TGSALIDMYSKCGSLKDARTLFEITRI---KNV------ASWNAMIGCYGKHGMVDSSIELFERMLEEGM---RAN--EV  386 (544)
Q Consensus       321 ~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~--~~  386 (544)
                      .+...+..+...|++++|.+.++....   ...      ..+..+...+...|++++|+..+++......   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            344456667777888888777764331   111      2344456667778899999999988876321   111  34


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc-----hhHHHHHHHHHHhcCCHHHHHHHHHhCC-------CCC-Ch
Q 044352          387 TLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS-----KEHYACVVDMLCRSGRMVEAYDLLRQVP-------MYV-TN  453 (544)
Q Consensus       387 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~-~~  453 (544)
                      ++..+...|...|++++|...++++.+.....|+     ..++..++.+|...|++++|.+.+++..       ... ..
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7788888889999999999999888732111222     2578888899999999999999988753       111 15


Q ss_pred             hHHHHHHHHHhhcCChHHH-HHHHHHHHHcC
Q 044352          454 SMAGAFRNGCNIHGRRDLA-VTMGEEFFEMG  483 (544)
Q Consensus       454 ~~~~~l~~~~~~~g~~~~A-~~~~~~~~~~~  483 (544)
                      .++..++.+|...|++++| ...+++++.+.
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~~  267 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASFFF  267 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHH
Confidence            5778888899999999999 78899887643

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.80  E-value=1.1e-07  Score=80.62  Aligned_cols=93  Identities=12%  Similarity=-0.053  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC----CCC-C----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCC--CCc----
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP----MYV-T----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGL--RKP----  487 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~-~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p--~~~----  487 (544)
                      .+..++..|...|++++|.+.+++..    ..+ +    ...+..++..+...|++++|...+++++++.+  .++    
T Consensus        68 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  147 (203)
T 3gw4_A           68 ALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIA  147 (203)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHH
Confidence            34444444555555555544444331    011 1    22345555666666777777777777665431  111    


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          488 DGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       488 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      .++..++.++...|++++|...+++.++
T Consensus       148 ~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          148 CAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            2345667777777777777777776654

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.78  E-value=3.9e-08  Score=77.35  Aligned_cols=93  Identities=12%  Similarity=-0.079  Sum_probs=71.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCC-CCC--------C-----hhHHHHHHHHHhhcCChHHHHHHHHHHHHc-------
Q 044352          424 YACVVDMLCRSGRMVEAYDLLRQVP-MYV--------T-----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEM-------  482 (544)
Q Consensus       424 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~--------~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------  482 (544)
                      +...+..+.+.|++++|+..|+++. ..|        +     ...|..++.++...|++++|+..+++++++       
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            3344444555555555555555442 111        1     237888888999999999999999999999       


Q ss_pred             CCCCchhH----HHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          483 GLRKPDGF----VMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       483 ~p~~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      +|+++.+|    ...|.++...|++++|+..|++.++.
T Consensus        94 ~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           94 NQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             TSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            99999999    99999999999999999999999864

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

Probab=98.78  E-value=7.5e-08  Score=74.10  Aligned_cols=97  Identities=15%  Similarity=0.153  Sum_probs=88.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          421 KEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       421 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      ...+..++..+...|++++|.+.++++.  .+.+...+..++..+...|++++|+.+++++++.+|.++.++..++.++.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            5678888999999999999999999874  44567788899999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhcC
Q 044352          499 ADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       499 ~~g~~~~A~~~~~~~~~~~  517 (544)
                      ..|++++|...++++.+..
T Consensus        89 ~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HhcCHHHHHHHHHHHHHhC
Confidence            9999999999999998764

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.75  E-value=4.4e-08  Score=87.85  Aligned_cols=97  Identities=10%  Similarity=-0.012  Sum_probs=85.8

Q ss_pred             CCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHH
Q 044352           10 NLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMV   85 (544)
Q Consensus        10 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~   85 (544)
                      |.+...+..++..+...|++++|+..++++++. |.+.. ++..++.+|...|++++|+..++++.   +.+...+..+.
T Consensus         1 p~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~-~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg   79 (281)
T 2c2l_A            1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAV-YYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (281)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHH-HHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHH-HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            345678889999999999999999999999999 66777 99999999999999999999999876   56677888999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhc
Q 044352           86 MASAFTGNFQEAIGYFSLMREF  107 (544)
Q Consensus        86 ~~~~~~~~~~~A~~~~~~~~~~  107 (544)
                      .++...|++++|+..|++..+.
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999999998874

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.74  E-value=7.4e-08  Score=74.88  Aligned_cols=99  Identities=10%  Similarity=-0.070  Sum_probs=89.7

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 044352          419 ISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI  496 (544)
Q Consensus       419 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  496 (544)
                      .+...+..++..+...|++++|...++++.  .+.+...+..++..+...|++++|+..++++++.+|+++.++..++.+
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           10 AEAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            345678888999999999999999999874  445678889999999999999999999999999999999999999999


Q ss_pred             HHhcCChHHHHHHHHHHHhcC
Q 044352          497 CAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       497 ~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +...|++++|+..++++.+..
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~  110 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD  110 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHhCCHHHHHHHHHHHHhcC
Confidence            999999999999999998764

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.74  E-value=2.6e-07  Score=73.65  Aligned_cols=112  Identities=11%  Similarity=-0.131  Sum_probs=66.6

Q ss_pred             CHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHH
Q 044352          384 NEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS----KEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAG  457 (544)
Q Consensus       384 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~  457 (544)
                      +...+..+...+...|++++|...|++..+.   .|+    ...+..++.+|...|++++|...++++.  .+.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL---DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH---cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHH
Confidence            3444555555555666666666666655432   233    3455555556666666666666665542  233455666


Q ss_pred             HHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          458 AFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       458 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      .++.++...|++++|...|+++++++|+++.++..+..+..
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  144 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISG  144 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHh
Confidence            66667777777777777777777777777666666655543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.72  E-value=1.3e-07  Score=75.35  Aligned_cols=100  Identities=14%  Similarity=-0.071  Sum_probs=90.0

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHH
Q 044352          418 KISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVT----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVM  492 (544)
Q Consensus       418 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  492 (544)
                      +.+...+..++..+...|++++|.+.|+++. ..|+    ...+..++.++...|++++|+..++++++.+|+++.++..
T Consensus        25 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  104 (148)
T 2dba_A           25 ASSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYR  104 (148)
T ss_dssp             CCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHH
Confidence            3456778889999999999999999999864 4555    5788888999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          493 LSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       493 l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ++.++...|++++|+..++++++..
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            9999999999999999999998764

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.72  E-value=9.8e-08  Score=74.14  Aligned_cols=89  Identities=11%  Similarity=0.002  Sum_probs=42.7

Q ss_pred             HHHHHhcCCHHHHHHHHHhCC--CCCCh---hHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC---chhHHHHHHHHHh
Q 044352          428 VDMLCRSGRMVEAYDLLRQVP--MYVTN---SMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK---PDGFVMLSNICAA  499 (544)
Q Consensus       428 ~~~~~~~g~~~~A~~~~~~~~--~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~~~  499 (544)
                      +..+...|++++|...|+++.  .+.+.   ..+..++.++...|++++|+..++++++.+|++   +.++..++.++..
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~~   88 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYG   88 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHH
Confidence            334444444444444444432  11111   244444445555555555555555555555555   4445555555555


Q ss_pred             cCChHHHHHHHHHHHhc
Q 044352          500 DGEWHEAENLRKIMKEK  516 (544)
Q Consensus       500 ~g~~~~A~~~~~~~~~~  516 (544)
                      .|++++|+..|+++++.
T Consensus        89 ~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           89 EGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            55555555555555443

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.72  E-value=1.1e-07  Score=74.84  Aligned_cols=114  Identities=9%  Similarity=-0.123  Sum_probs=87.6

Q ss_pred             CCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHH
Q 044352          383 ANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFR  460 (544)
Q Consensus       383 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~  460 (544)
                      .+...+..+...+...|++++|...|++....  .+.+...+..++.++...|++++|...++++.  .+.+...+..++
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            45667777777888888888888888887764  34456778888888888888888888887764  445677888888


Q ss_pred             HHHhhcCChHHHHHHHHHHHHcCCC-----CchhHHHHHHHHH
Q 044352          461 NGCNIHGRRDLAVTMGEEFFEMGLR-----KPDGFVMLSNICA  498 (544)
Q Consensus       461 ~~~~~~g~~~~A~~~~~~~~~~~p~-----~~~~~~~l~~~~~  498 (544)
                      .++...|++++|+..|+++++++|+     +..+...+..+..
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~  127 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKK  127 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999998887     5555555555443

>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=98.71  E-value=2.1e-05  Score=71.13  Aligned_cols=169  Identities=9%  Similarity=-0.015  Sum_probs=97.7

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccC-chHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-C-CHHHHHH
Q 044352          264 RENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTG-SIQIGREIHALVCRMGLHIDVFTGSALIDMYSKC-G-SLKDART  340 (544)
Q Consensus       264 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~A~~  340 (544)
                      ..++|++++.+++..+ +-+..+++.--.++...+ +++++..+++.+....+ .+..+|+.-..++... + ++++++.
T Consensus        69 ~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nP-Kny~aW~hR~wlL~~l~~~~~~~EL~  146 (349)
T 3q7a_A           69 KSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNL-KSYQVWHHRLLLLDRISPQDPVSEIE  146 (349)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHHHCCSCCHHHHH
T ss_pred             CCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhcCCChHHHHH
Confidence            3345555555555432 122233333333333334 35555555555555442 2455555554445444 5 6677777


Q ss_pred             HHHhcCC---ccHHHHHHHHHHHHhcCChH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc-------hH
Q 044352          341 LFEITRI---KNVASWNAMIGCYGKHGMVD--------SSIELFERMLEEGMRANEVTLISVLSACSHGGL-------VE  402 (544)
Q Consensus       341 ~~~~~~~---~~~~~~~~l~~~~~~~g~~~--------~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~  402 (544)
                      +++.+..   +|..+|+.-...+.+.|.++        ++++.++++++.. +-|...|+.....+.+.+.       ++
T Consensus       147 ~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~  225 (349)
T 3q7a_A          147 YIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQ  225 (349)
T ss_dssp             HHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHHH
Confidence            7776664   34456655555555555555        7888888888763 4477777777777777665       67


Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCH
Q 044352          403 KGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRM  437 (544)
Q Consensus       403 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  437 (544)
                      ++++.++++...  .+-|...|+.+-..+.+.|+.
T Consensus       226 eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~~~  258 (349)
T 3q7a_A          226 DELIYILKSIHL--IPHNVSAWNYLRGFLKHFSLP  258 (349)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCC
Confidence            788888777763  355666666666666665543

>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=98.71  E-value=1.3e-06  Score=79.07  Aligned_cols=175  Identities=6%  Similarity=-0.049  Sum_probs=120.5

Q ss_pred             HHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCC-ChHHHHHHhccCC---CCCchhHHHHHHHHHhc
Q 044352           17 DCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCG-DVNSARLVFDKIP---NPNVFMLNWMVMASAFT   91 (544)
Q Consensus        17 ~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~   91 (544)
                      ..+.....+.+..++|+..++.++.. |.+.. +++....++...| .+++++..++.+.   +.+..+|+.-...+...
T Consensus        58 ~~~r~~~~~~e~se~AL~lt~~~L~~nP~~yt-aWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l  136 (349)
T 3q7a_A           58 DYFRAIAAKEEKSERALELTEIIVRMNPAHYT-VWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRI  136 (349)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHhCchhHH-HHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHh
Confidence            33333344555667899999999999 55555 9999999998888 5999999999876   67778888887777776


Q ss_pred             -C-CHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChH--------HHHHHHHHHHHcCCCCChhHHHHHHHHHHhC
Q 044352           92 -G-NFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIK--------KGKQVHAVATQMGFENDVSVGNALIDMYSKC  161 (544)
Q Consensus        92 -~-~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  161 (544)
                       + ++++++++++++.+...+ +..+|+.-.-.+...+.++        ++.+..+.+.+.. +.|..+|+....++.+.
T Consensus       137 ~~~~~~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l  214 (349)
T 3q7a_A          137 SPQDPVSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSR  214 (349)
T ss_dssp             CCSCCHHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTS
T ss_pred             cCCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence             6 889999999999875432 5556655444444444444        7777888887775 56777777777776666


Q ss_pred             CC-------HHHHHHHHhhccC---CChhhHHHHHHHHhccCC
Q 044352          162 GL-------LCSARRVFHGMFE---RDVVSWTSMISGYCNVSK  194 (544)
Q Consensus       162 ~~-------~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~  194 (544)
                      ++       ++++++.+++...   .|...|+-+-..+.+.|.
T Consensus       215 ~~~~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          215 PGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             TTCCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             cccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCC
Confidence            65       4556666655533   345556554444444443

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.71  E-value=1.2e-07  Score=91.40  Aligned_cols=96  Identities=9%  Similarity=-0.042  Sum_probs=78.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          421 KEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       421 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      ...|..++.+|.+.|++++|+..++++.  .+.+..++..++.+|...|++++|+..|+++++++|.+..++..++.++.
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  396 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQK  396 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            4678888899999999999999998874  45567889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHH-HHHHHHhc
Q 044352          499 ADGEWHEAEN-LRKIMKEK  516 (544)
Q Consensus       499 ~~g~~~~A~~-~~~~~~~~  516 (544)
                      +.|++++|.. .+++|..+
T Consensus       397 ~~~~~~~a~~~~~~~~f~k  415 (457)
T 1kt0_A          397 KAKEHNERDRRIYANMFKK  415 (457)
T ss_dssp             HHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            9999998875 56666544

>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=98.71  E-value=4.2e-07  Score=74.04  Aligned_cols=129  Identities=12%  Similarity=-0.053  Sum_probs=95.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 044352          351 ASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDM  430 (544)
Q Consensus       351 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  430 (544)
                      ..+..+...+...|++++|...+++..... +.+..++..+..++...|++++|...+++..+.  .+.+...+..++.+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~   90 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHH
Confidence            356667777888888888888888887752 446777788888888888888888888888774  34566778888888


Q ss_pred             HHhcCCHHHHHHHHHhCC--CCCChhHHHH--HHHHHhhcCChHHHHHHHHHHHHc
Q 044352          431 LCRSGRMVEAYDLLRQVP--MYVTNSMAGA--FRNGCNIHGRRDLAVTMGEEFFEM  482 (544)
Q Consensus       431 ~~~~g~~~~A~~~~~~~~--~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~~~  482 (544)
                      +...|++++|...++++.  .+.+...+..  .+..+...|++++|+..+++..+.
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  146 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSV  146 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHHH
Confidence            888888888888888763  3334445533  333467788899999888877653

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.68  E-value=6.1e-06  Score=74.33  Aligned_cols=179  Identities=12%  Similarity=-0.012  Sum_probs=103.0

Q ss_pred             HHHHHHHHhcC---CccHHHHHHHHHHHHhcC--ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc-hHHHHHHHH
Q 044352          336 KDARTLFEITR---IKNVASWNAMIGCYGKHG--MVDSSIELFERMLEEGMRANEVTLISVLSACSHGGL-VEKGLEIFR  409 (544)
Q Consensus       336 ~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~  409 (544)
                      ++++.+++.+.   ..+..+|+.-..++...|  .+++++.+++++.+.. +-|..+|+.-..++...|. ++++++.++
T Consensus        91 ~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~  169 (331)
T 3dss_A           91 KAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTD  169 (331)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHH
Confidence            44444444433   234455555555555555  3566666666666652 3355566555555555565 466666666


Q ss_pred             HHHHHhCCCCchhHHHHHHHHHHhc--------------CCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhc-------
Q 044352          410 SMKERYGVKISKEHYACVVDMLCRS--------------GRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIH-------  466 (544)
Q Consensus       410 ~~~~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~-------  466 (544)
                      ++.+.  .+-+...|+.....+.+.              +.++++++.+.++.  .+.|..+|+.+-..+...       
T Consensus       170 ~~I~~--~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~  247 (331)
T 3dss_A          170 SLITR--NFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELS  247 (331)
T ss_dssp             HHHHH--CSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCC
T ss_pred             HHHHH--CCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccc
Confidence            66653  244455555555444443              34566666666653  445566665444444433       


Q ss_pred             ----CChHHHHHHHHHHHHcCCCCchhHHHHHHHH---HhcCChHHHHHHHHHHHhcC
Q 044352          467 ----GRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC---AADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       467 ----g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~---~~~g~~~~A~~~~~~~~~~~  517 (544)
                          +.++++++.++++++++|++.-.+..++...   ...|..++....+.++.+.+
T Consensus       248 ~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~D  305 (331)
T 3dss_A          248 VEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  305 (331)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhC
Confidence                3477888888888888887755444443322   24577778888888877643

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.66  E-value=9.8e-08  Score=77.63  Aligned_cols=62  Identities=13%  Similarity=0.028  Sum_probs=31.5

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          455 MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      .+..++.+|...|++++|+..++++++++|.++.++..+|.+|...|++++|+..|+++++.
T Consensus        65 ~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           65 LYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            34444444555555555555555555555555555555555555555555555555554443

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.65  E-value=6.6e-08  Score=89.14  Aligned_cols=140  Identities=15%  Similarity=0.043  Sum_probs=100.5

Q ss_pred             ccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCC---------------chhHHHHH
Q 044352           25 KSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPN---------------VFMLNWMV   85 (544)
Q Consensus        25 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~---------------~~~~~~l~   85 (544)
                      ..++++.|+..++..++. +.+.. ++..++..+.+.|++++|+..|++..   +.+               ..+|..+.
T Consensus       125 ~L~~~~~A~~~~~~a~~~~p~~a~-~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla  203 (336)
T 1p5q_A          125 HLKSFEKAKESWEMNSEEKLEQST-IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLA  203 (336)
T ss_dssp             EEEEEECCCCGGGCCHHHHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             EEeecccccchhcCCHHHHHHHHH-HHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHH
Confidence            556778888888887776 44556 88888888888999999999888765   333               36677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHH
Q 044352           86 MASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLC  165 (544)
Q Consensus        86 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  165 (544)
                      .++.+.|++++|+..|++.++.. +.+...+..+..++...|++++|...|+.+.+.. |.+..++..+..++...|+.+
T Consensus       204 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~  281 (336)
T 1p5q_A          204 MCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQL  281 (336)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHH
Confidence            77777777777777777777643 2245566677777777777777777777777664 445566666666666666666


Q ss_pred             HH
Q 044352          166 SA  167 (544)
Q Consensus       166 ~A  167 (544)
                      +|
T Consensus       282 ~a  283 (336)
T 1p5q_A          282 AR  283 (336)
T ss_dssp             HH
T ss_pred             HH
Confidence            66

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.64  E-value=8.7e-08  Score=88.35  Aligned_cols=150  Identities=9%  Similarity=-0.066  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 044352          350 VASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVD  429 (544)
Q Consensus       350 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  429 (544)
                      ...+..+...+...|++++|+..|++.+..  .|+...       +...++.+++...+           ....|..++.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l-----------~~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV-----------KNPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH-----------HTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH-----------HHHHHHHHHH
Confidence            346777788888899999999999998874  454331       23344444443222           1237788899


Q ss_pred             HHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHH-HhcCChHHH
Q 044352          430 MLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC-AADGEWHEA  506 (544)
Q Consensus       430 ~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~~A  506 (544)
                      +|.+.|++++|+..++++.  .+.+..++..++.+|...|++++|+..|+++++++|.++.++..++.+. ...+..+++
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999998874  4456788999999999999999999999999999999999999998884 456778888


Q ss_pred             HHHHHHHHhcCCC
Q 044352          507 ENLRKIMKEKNVQ  519 (544)
Q Consensus       507 ~~~~~~~~~~~~~  519 (544)
                      ...|+++.+....
T Consensus       319 ~~~~~~~l~~~p~  331 (338)
T 2if4_A          319 KEMYKGIFKGKDE  331 (338)
T ss_dssp             -------------
T ss_pred             HHHHHHhhCCCCC
Confidence            8899988866543

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.64  E-value=1e-07  Score=74.03  Aligned_cols=110  Identities=8%  Similarity=-0.026  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-----CCCC----hhHH
Q 044352          386 VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-----MYVT----NSMA  456 (544)
Q Consensus       386 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~----~~~~  456 (544)
                      ..+..+...+...|++++|...+++..+.  .+.+...+..++.+|...|++++|...++++.     ..++    ..++
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            45566666677777777777777777663  24455666667777777777777777776652     1112    4456


Q ss_pred             HHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          457 GAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       457 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      ..++.++...|++++|...++++++..| ++.....+..+..
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~  123 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAEK  123 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHHH
Confidence            6666667777777777777777777666 4555555555443

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.63  E-value=7e-08  Score=93.45  Aligned_cols=118  Identities=8%  Similarity=-0.110  Sum_probs=96.1

Q ss_pred             HHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCCh
Q 044352          392 LSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRR  469 (544)
Q Consensus       392 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~  469 (544)
                      ...+...|++++|.+.++++.+.  .+.+...+..++.+|.+.|++++|.+.++++.  .+.+..++..++.+|...|++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            33456778888888888888774  34457788888888889999999998888763  345677889999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHH--HHhcCChHHHHHHHH
Q 044352          470 DLAVTMGEEFFEMGLRKPDGFVMLSNI--CAADGEWHEAENLRK  511 (544)
Q Consensus       470 ~~A~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~A~~~~~  511 (544)
                      ++|++.++++++++|+++.++..++.+  +.+.|++++|++.++
T Consensus        91 ~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999999999999999888  889999999999988

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.62  E-value=3.1e-08  Score=75.49  Aligned_cols=63  Identities=8%  Similarity=-0.080  Sum_probs=37.3

Q ss_pred             hHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          454 SMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       454 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      .++..++.++...|++++|+..++++++++|+++.++..++.++...|++++|+..++++++.
T Consensus        28 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~   90 (117)
T 3k9i_A           28 ECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345555555556666666666666666666666666666666666666666666666655543

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.62  E-value=1.8e-07  Score=71.59  Aligned_cols=98  Identities=6%  Similarity=-0.096  Sum_probs=74.1

Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhh
Q 044352          388 LISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNI  465 (544)
Q Consensus       388 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~  465 (544)
                      +..+...+.+.|++++|...++++.+.  .+.+...+..++.++...|++++|+..|+++.  .+.+...+..++.++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            445566677888888888888888774  34567778888888888888888888888764  44567788888889999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCc
Q 044352          466 HGRRDLAVTMGEEFFEMGLRKP  487 (544)
Q Consensus       466 ~g~~~~A~~~~~~~~~~~p~~~  487 (544)
                      .|++++|+..++++++++|.++
T Consensus        98 ~g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHHC------
T ss_pred             cCCHHHHHHHHHHHHHhCcCCC
Confidence            9999999999999999998764

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.61  E-value=8e-07  Score=68.85  Aligned_cols=107  Identities=9%  Similarity=-0.051  Sum_probs=77.6

Q ss_pred             HHHHHHhcCCchHHHHHHHHHHHHHhCCCCch---hHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCC---hhHHHHHHH
Q 044352          390 SVLSACSHGGLVEKGLEIFRSMKERYGVKISK---EHYACVVDMLCRSGRMVEAYDLLRQVP--MYVT---NSMAGAFRN  461 (544)
Q Consensus       390 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~---~~~~~~l~~  461 (544)
                      .+...+...|++++|...|+++.+.  .+.+.   ..+..++.++...|++++|...|+++.  .+.+   +.++..++.
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLEL--YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHH--CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHH
Confidence            3455666777788888777777664  12223   466677777888888888888877753  2223   566788888


Q ss_pred             HHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          462 GCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       462 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      ++...|++++|+..|+++++..|+++.+......+-.
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~  121 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERLQS  121 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHH
Confidence            9999999999999999999999988777666554443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.60  E-value=1.6e-07  Score=76.41  Aligned_cols=81  Identities=10%  Similarity=-0.114  Sum_probs=67.5

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCc-hhHHHHHHH
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKP-DGFVMLSNI  496 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~-~~~~~l~~~  496 (544)
                      +...|..++.+|.+.|++++|+..++++.  .+.+..++..++.++...|++++|+..|+++++++|+++ .+...+..+
T Consensus        62 ~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~  141 (162)
T 3rkv_A           62 NIPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIV  141 (162)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            45678888999999999999999998874  455678899999999999999999999999999999988 556566555


Q ss_pred             HHhc
Q 044352          497 CAAD  500 (544)
Q Consensus       497 ~~~~  500 (544)
                      ..+.
T Consensus       142 ~~~~  145 (162)
T 3rkv_A          142 TERR  145 (162)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.58  E-value=2.9e-07  Score=71.41  Aligned_cols=97  Identities=7%  Similarity=0.009  Sum_probs=67.9

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC-------chhHH
Q 044352          421 KEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK-------PDGFV  491 (544)
Q Consensus       421 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~  491 (544)
                      ...+..++..+...|++++|...++++.  .+.+...+..++..+...|++++|...++++++..|.+       +.++.
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            3456666777777777777777777653  34456666777777777777777777777777776655       66677


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          492 MLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       492 ~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .++.++...|++++|.+.++++.+..
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~  109 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEH  109 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            77777777777777777777776643

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.57  E-value=1.4e-07  Score=79.74  Aligned_cols=144  Identities=10%  Similarity=-0.065  Sum_probs=80.1

Q ss_pred             HHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCc----------------hh
Q 044352           21 GKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNV----------------FM   80 (544)
Q Consensus        21 ~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~----------------~~   80 (544)
                      ......|+++.+.+.++..... +.... .+..++..+...|++++|+..|++..   +.++                ..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~   90 (198)
T 2fbn_A           12 SGRENLYFQGAKKSIYDYTDEEKVQSAF-DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISC   90 (198)
T ss_dssp             ----------CCCSGGGCCHHHHHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhccccCchhhCCHHHHHHHHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHH
Confidence            3344567777777777765555 44444 67777777777888888887777654   2233                45


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 044352           81 LNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSK  160 (544)
Q Consensus        81 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  160 (544)
                      |..+..++...|++++|+..+++.++.. +.+...+..+..++...|++++|...++...+.. +.+..++..+..++..
T Consensus        91 ~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  168 (198)
T 2fbn_A           91 NLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNK  168 (198)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHH
Confidence            5666666666666666666666666532 1244455556666666666666666666666553 3344455555555544


Q ss_pred             CCCHHHH
Q 044352          161 CGLLCSA  167 (544)
Q Consensus       161 ~~~~~~A  167 (544)
                      .++..++
T Consensus       169 ~~~~~~~  175 (198)
T 2fbn_A          169 LKEARKK  175 (198)
T ss_dssp             HHHHHC-
T ss_pred             HHHHHHH
Confidence            4444333

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.56  E-value=2.3e-07  Score=69.75  Aligned_cols=98  Identities=6%  Similarity=-0.229  Sum_probs=71.5

Q ss_pred             CCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CC--CchhHH
Q 044352            9 NNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NP--NVFMLN   82 (544)
Q Consensus         9 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~--~~~~~~   82 (544)
                      +|.+...+..++..+...|++++|...++++++. +.+.. ++..++.++...|++++|+..|++..   +.  +...|.
T Consensus         2 ~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~-~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~   80 (112)
T 2kck_A            2 VDQNPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESK-YWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWA   80 (112)
T ss_dssp             CCSSTTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHH-HHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHH
Confidence            3456667777777788888888888888888877 55566 77777777777777777777777654   34  566677


Q ss_pred             HHHHHHHhc-CCHHHHHHHHHHHHhc
Q 044352           83 WMVMASAFT-GNFQEAIGYFSLMREF  107 (544)
Q Consensus        83 ~l~~~~~~~-~~~~~A~~~~~~~~~~  107 (544)
                      .+..++... |++++|++.+++....
T Consensus        81 ~l~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           81 AKADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHhhc
Confidence            777777777 7777777777777664

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.56  E-value=3.6e-07  Score=70.60  Aligned_cols=92  Identities=12%  Similarity=-0.018  Sum_probs=60.4

Q ss_pred             chHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCC-------chhHH
Q 044352           14 NYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPN-------VFMLN   82 (544)
Q Consensus        14 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~-------~~~~~   82 (544)
                      .++..+...+.+.|++++|+..|+++++. |.+.. ++..++.+|...|++++|+..|++..   +.+       ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~-~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNIT-FYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            45666777777777777777777777777 55555 77777777777777777777776654   111       12455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHh
Q 044352           83 WMVMASAFTGNFQEAIGYFSLMRE  106 (544)
Q Consensus        83 ~l~~~~~~~~~~~~A~~~~~~~~~  106 (544)
                      .+..++...|++++|++.|++.+.
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh
Confidence            555566666666777666666655

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.56  E-value=5.2e-07  Score=76.38  Aligned_cols=83  Identities=12%  Similarity=-0.004  Sum_probs=37.5

Q ss_pred             cCCChHHHHH---HhccCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcc----c-ccCHHHHHHHHHHhhCCCChH
Q 044352           59 GCGDVNSARL---VFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFI----Y-RCNKFTFSIVLKACVGLLDIK  130 (544)
Q Consensus        59 ~~g~~~~A~~---~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~----~-~p~~~~~~~ll~~~~~~~~~~  130 (544)
                      ..|++++|.+   .+...+.....++..+...+...|++++|+..+++..+..    . .....++..+...+...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            3455555555   4433223334455555555555555555555555554310    0 111223444444445555555


Q ss_pred             HHHHHHHHHHH
Q 044352          131 KGKQVHAVATQ  141 (544)
Q Consensus       131 ~a~~~~~~~~~  141 (544)
                      +|...+++..+
T Consensus        84 ~A~~~~~~al~   94 (203)
T 3gw4_A           84 AARRCFLEERE   94 (203)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555544433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.55  E-value=8.4e-08  Score=73.04  Aligned_cols=94  Identities=13%  Similarity=0.016  Sum_probs=68.2

Q ss_pred             CCchHHHHHHHHHHHHHhC--CCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHH
Q 044352          398 GGLVEKGLEIFRSMKERYG--VKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAV  473 (544)
Q Consensus       398 ~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~  473 (544)
                      .|++++|+..|+++.+. +  .+.+...+..++.+|...|++++|...|+++.  .+.+...+..++.++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            46677777777777642 1  13345667777778888888888888887763  3445778888888999999999999


Q ss_pred             HHHHHHHHcCCCCchhHHH
Q 044352          474 TMGEEFFEMGLRKPDGFVM  492 (544)
Q Consensus       474 ~~~~~~~~~~p~~~~~~~~  492 (544)
                      ..++++++..|+++.....
T Consensus        82 ~~~~~al~~~p~~~~~~~~  100 (117)
T 3k9i_A           82 ELLLKIIAETSDDETIQSY  100 (117)
T ss_dssp             HHHHHHHHHHCCCHHHHHT
T ss_pred             HHHHHHHHhCCCcHHHHHH
Confidence            9999999999988776543

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.54  E-value=4.2e-07  Score=84.68  Aligned_cols=138  Identities=8%  Similarity=-0.094  Sum_probs=102.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 044352          351 ASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDM  430 (544)
Q Consensus       351 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  430 (544)
                      ..+..+...+.+.|++++|+..|++.++.  .+...          .....+       ...+  ..+.+...|..++.+
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~--~~~~~----------~~~~~~-------~~~~--~~~~~~~~~~nla~~  282 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGSR----------AAAEDA-------DGAK--LQPVALSCVLNIGAC  282 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH----------HHSCHH-------HHGG--GHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hhcCc----------cccChH-------HHHH--HHHHHHHHHHHHHHH
Confidence            35666677777777777777777776652  11100          000011       1000  112345678889999


Q ss_pred             HHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHH
Q 044352          431 LCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAEN  508 (544)
Q Consensus       431 ~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  508 (544)
                      |.+.|++++|++.++++.  .+.+..++..++.+|...|++++|+..|+++++++|+++.++..++.++...++.+++.+
T Consensus       283 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          283 KLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998864  344677889999999999999999999999999999999999999999999999888876


Q ss_pred             H
Q 044352          509 L  509 (544)
Q Consensus       509 ~  509 (544)
                      .
T Consensus       363 ~  363 (370)
T 1ihg_A          363 A  363 (370)
T ss_dssp             C
T ss_pred             H
Confidence            4

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.53  E-value=3.8e-07  Score=73.88  Aligned_cols=94  Identities=12%  Similarity=0.079  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC----CCCC----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCC------CCch
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP----MYVT----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGL------RKPD  488 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p------~~~~  488 (544)
                      .+..++..+...|++++|.+.++++.    ..++    ...+..++..+...|++++|...++++++..+      ....
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            44445555555566665555555432    0111    33556677778888888888888888887532      1235


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          489 GFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       489 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      ++..++.++...|++++|.+.+++..+.
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            6778889999999999999999888753

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.50  E-value=6e-07  Score=65.92  Aligned_cols=67  Identities=13%  Similarity=-0.031  Sum_probs=59.2

Q ss_pred             CCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          450 YVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       450 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      +.++..+..++.++...|++++|+..|+++++++|+++.++..++.+|...|++++|+..|++.++.
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3456788888889999999999999999999999999999999999999999999999999988764

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.50  E-value=8.5e-06  Score=80.31  Aligned_cols=168  Identities=8%  Similarity=-0.081  Sum_probs=135.3

Q ss_pred             HHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC--
Q 044352          335 LKDARTLFEITRI---KNVASWNAMIGCYGKHGM----------VDSSIELFERMLEEGMRANEVTLISVLSACSHGG--  399 (544)
Q Consensus       335 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--  399 (544)
                      .++|.+.++.+..   .+..+|+.-..++...|+          ++++++.++++.+.. +-+..+|..-..++.+.+  
T Consensus        45 ~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~~  123 (567)
T 1dce_A           45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEP  123 (567)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSC
T ss_pred             CHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccc
Confidence            4566777776653   344566666666666666          899999999999863 557888888888888888  


Q ss_pred             chHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC-CHHHHHHHHHhCC--CCCChhHHHHHHHHHhhc----------
Q 044352          400 LVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSG-RMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIH----------  466 (544)
Q Consensus       400 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~----------  466 (544)
                      +++++++.++++.+.  .+-+...|+.-..++.+.| .++++.+.++++.  .+.+..+|.....++...          
T Consensus       124 ~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          124 NWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             cHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccc
Confidence            679999999999985  4557778888888888888 8999999999885  455678888877776653          


Q ss_pred             ----CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHH
Q 044352          467 ----GRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHE  505 (544)
Q Consensus       467 ----g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  505 (544)
                          +.++++++.++++++.+|++..+|..+.+++.+.++.++
T Consensus       202 ~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                567999999999999999999999999999999998665

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.49  E-value=4.9e-08  Score=73.52  Aligned_cols=93  Identities=13%  Similarity=-0.111  Sum_probs=76.3

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC------chhHH
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK------PDGFV  491 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~  491 (544)
                      +...+..++..+...|++++|.+.|+++.  .+.+...+..++.++...|++++|+..++++++++|++      +.++.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            45567777888888888888888888763  44567788888889999999999999999999999988      77888


Q ss_pred             HHHHHHHhcCChHHHHHHHHH
Q 044352          492 MLSNICAADGEWHEAENLRKI  512 (544)
Q Consensus       492 ~l~~~~~~~g~~~~A~~~~~~  512 (544)
                      .++.++...|++++|+..+++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHHH
Confidence            888888888888888776544

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.49  E-value=8.3e-06  Score=73.43  Aligned_cols=194  Identities=10%  Similarity=-0.046  Sum_probs=143.9

Q ss_pred             hcCCHH-HHHHHHHhcCCc---cHHHHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 044352          331 KCGSLK-DARTLFEITRIK---NVASWNAMIGCYGKHGM----------VDSSIELFERMLEEGMRANEVTLISVLSACS  396 (544)
Q Consensus       331 ~~~~~~-~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  396 (544)
                      +.|.+. +|+.+++.+...   +..+|+.--..+...+.          +++++.+++.++... +-+..+|..-...+.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~  119 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLS  119 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHh
Confidence            344433 566666665542   23344443333333222          678999999998863 557888888777777


Q ss_pred             cCC--chHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC-HHHHHHHHHhCC--CCCChhHHHHHHHHHhhc-----
Q 044352          397 HGG--LVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGR-MVEAYDLLRQVP--MYVTNSMAGAFRNGCNIH-----  466 (544)
Q Consensus       397 ~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~-----  466 (544)
                      ..+  .+++++.+++++.+.  .+-+...|+.-..++...|. ++++++.++++.  .+.+..+|......+...     
T Consensus       120 ~l~~~~~~~EL~~~~k~l~~--dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          120 RLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC-
T ss_pred             ccCcccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhccc
Confidence            777  489999999999985  45677788888888888888 589999998874  566788888877776655     


Q ss_pred             ---------CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhc-----------CChHHHHHHHHHHHhcCCCCCCCceE
Q 044352          467 ---------GRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAAD-----------GEWHEAENLRKIMKEKNVQKQPGFSR  526 (544)
Q Consensus       467 ---------g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-----------g~~~~A~~~~~~~~~~~~~~~~~~~~  526 (544)
                               +.++++++.+++++..+|+|..+|..+.+++.+.           +.++++++.++++++..    |..-|
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~----pd~~w  273 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE----PENKW  273 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC----TTCHH
T ss_pred             cccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC----cccch
Confidence                     4589999999999999999999999998888877           56889999999998765    33466


Q ss_pred             EEecC
Q 044352          527 VEKRN  531 (544)
Q Consensus       527 ~~~~~  531 (544)
                      ..+..
T Consensus       274 ~l~~~  278 (331)
T 3dss_A          274 CLLTI  278 (331)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            64443

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.49  E-value=7.7e-07  Score=86.14  Aligned_cols=114  Identities=12%  Similarity=-0.041  Sum_probs=47.5

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 044352          361 GKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEA  440 (544)
Q Consensus       361 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  440 (544)
                      ...|++++|++.+++.++.. +.+..++..+..++.+.|++++|+..++++.+  ..+.+...+..++.+|...|++++|
T Consensus        17 ~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           17 FKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIE--LDKKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            34444444554444444431 22344444444444455555555555544443  2223344444444455555555555


Q ss_pred             HHHHHhCC--CCCChhHHHHHHHH--HhhcCChHHHHHHHH
Q 044352          441 YDLLRQVP--MYVTNSMAGAFRNG--CNIHGRRDLAVTMGE  477 (544)
Q Consensus       441 ~~~~~~~~--~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  477 (544)
                      .+.|+++.  .+.+...+..+..+  +...|++++|++.++
T Consensus        94 ~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            55444432  11222233333333  444455555555555

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.48  E-value=1.4e-06  Score=83.74  Aligned_cols=164  Identities=9%  Similarity=-0.108  Sum_probs=111.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCH----HHHHHHHHHHhcCCchHHHHHHHHHHHHHh---CC-CCchh
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEEG-MRANE----VTLISVLSACSHGGLVEKGLEIFRSMKERY---GV-KISKE  422 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~-~~~~~  422 (544)
                      ++..++..|...|++++|.+.+.++...- ..++.    .+...+...+...|+++.|..++.......   +. .....
T Consensus        57 al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  136 (434)
T 4b4t_Q           57 SILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHS  136 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHH
Confidence            35667777888888888888877765521 11111    122333334456778888888887765431   11 22245


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC-------CCC-ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC---CCC----c
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP-------MYV-TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG---LRK----P  487 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---p~~----~  487 (544)
                      ++..++..|...|++++|..+++++.       ..+ ....+..++..|...|++++|..++++++...   +.+    .
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  216 (434)
T 4b4t_Q          137 LSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVA  216 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHH
Confidence            67788888889999999988887652       112 23467778888899999999999999888754   222    1


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          488 DGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       488 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      ..+..++..+...|++++|...+.+..+
T Consensus       217 ~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          217 ELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            3466677888888999999988877764

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.45  E-value=1e-06  Score=84.62  Aligned_cols=130  Identities=14%  Similarity=0.063  Sum_probs=97.6

Q ss_pred             HHhcCCchHHHHHHHHHHHHHhCC--C---C-chhHHHHHHHHHHhcCCHHHHHHHHHhCC---------CCCC-hhHHH
Q 044352          394 ACSHGGLVEKGLEIFRSMKERYGV--K---I-SKEHYACVVDMLCRSGRMVEAYDLLRQVP---------MYVT-NSMAG  457 (544)
Q Consensus       394 ~~~~~~~~~~a~~~~~~~~~~~~~--~---~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~-~~~~~  457 (544)
                      .+...|++++|+.++++..+...-  .   | ...+++.++.+|...|++++|..+++++.         ..|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            355778888888888777654211  1   1 24567888888888888888888887652         3333 34678


Q ss_pred             HHHHHHhhcCChHHHHHHHHHHHH-----cCCCCchhH---HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCC
Q 044352          458 AFRNGCNIHGRRDLAVTMGEEFFE-----MGLRKPDGF---VMLSNICAADGEWHEAENLRKIMKEKNVQKQPG  523 (544)
Q Consensus       458 ~l~~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  523 (544)
                      .++..|...|++++|+.+++++++     ++|++|.+.   ..+..++..+|.+++|...|+++.+......|-
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~~~~~~~  471 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAALNNQPM  471 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC---
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence            899999999999999999999987     568887764   567888889999999999999998765444443

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.42  E-value=1.9e-07  Score=73.19  Aligned_cols=49  Identities=14%  Similarity=0.108  Sum_probs=41.8

Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcC-----------ChHHHHHHHHHHHhcC
Q 044352          469 RDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG-----------EWHEAENLRKIMKEKN  517 (544)
Q Consensus       469 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-----------~~~~A~~~~~~~~~~~  517 (544)
                      +++|+..|+++++++|+++.+|..++.+|...|           ++++|+++|+++++.+
T Consensus        62 ~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           62 IQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhC
Confidence            568999999999999988889999999888774           8889999998888754

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.42  E-value=2.6e-06  Score=83.96  Aligned_cols=164  Identities=10%  Similarity=-0.055  Sum_probs=136.4

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc----------hHHHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 044352          363 HGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGL----------VEKGLEIFRSMKERYGVKISKEHYACVVDMLC  432 (544)
Q Consensus       363 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  432 (544)
                      ....++|++.+++++... +-+..+|+.-..++...|+          +++++.+++.+.+.  .+-+..+|..-..++.
T Consensus        42 ~~~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~  118 (567)
T 1dce_A           42 GELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLS  118 (567)
T ss_dssp             TCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            344567899999999962 3355667666666666666          89999999999884  4667888988888999


Q ss_pred             hcC--CHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcC-ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhc-------
Q 044352          433 RSG--RMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHG-RRDLAVTMGEEFFEMGLRKPDGFVMLSNICAAD-------  500 (544)
Q Consensus       433 ~~g--~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-------  500 (544)
                      +.|  ++++++++++++.  .+.+..+|..-..++...| .++++++.++++++.+|.|..+|...+.++.+.       
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             HcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccc
Confidence            999  7799999999985  6678889998888888888 899999999999999999999999999998884       


Q ss_pred             -------CChHHHHHHHHHHHhcCCCCCCCceEEEecC
Q 044352          501 -------GEWHEAENLRKIMKEKNVQKQPGFSRVEKRN  531 (544)
Q Consensus       501 -------g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  531 (544)
                             +.+++|+++++++++..  |.....|..+++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~--P~~~saW~y~~~  234 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTD--PNDQSAWFYHRW  234 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHC--SSCSHHHHHHHH
T ss_pred             ccccccHHHHHHHHHHHHHHHhhC--CCCccHHHHHHH
Confidence                   56799999999998754  667778887777

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.40  E-value=1.3e-06  Score=80.57  Aligned_cols=153  Identities=8%  Similarity=-0.041  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 044352          319 VFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHG  398 (544)
Q Consensus       319 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  398 (544)
                      ...+..+...+.+.|++++|...|++....++...     .+...|+..++...+.          ...+..+..++.+.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~-----~~~~~~~~~~~~~~l~----------~~~~~nla~~~~~~  243 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDF-----MFQLYGKYQDMALAVK----------NPCHLNIAACLIKL  243 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHH-----HHTCCHHHHHHHHHHH----------THHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccch-----hhhhcccHHHHHHHHH----------HHHHHHHHHHHHHc
Confidence            45677788888999999999999988664222111     1222333344332221          23678888899999


Q ss_pred             CchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCC-ChhHHHHHHHH-HhhcCChHHHHHH
Q 044352          399 GLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYV-TNSMAGAFRNG-CNIHGRRDLAVTM  475 (544)
Q Consensus       399 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~-~~~~g~~~~A~~~  475 (544)
                      |++++|+..++++.+.  .+.+...+..++.+|...|++++|...|+++. ..| +...+..+... ....+..+++...
T Consensus       244 g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~~  321 (338)
T 2if4_A          244 KRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQKEM  321 (338)
T ss_dssp             TCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------------------
T ss_pred             CCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999874  35567889999999999999999999999985 333 44556555555 3456778899999


Q ss_pred             HHHHHHcCCCCch
Q 044352          476 GEEFFEMGLRKPD  488 (544)
Q Consensus       476 ~~~~~~~~p~~~~  488 (544)
                      |++++...|.++.
T Consensus       322 ~~~~l~~~p~~~~  334 (338)
T 2if4_A          322 YKGIFKGKDEGGA  334 (338)
T ss_dssp             -------------
T ss_pred             HHHhhCCCCCCCC
Confidence            9999999987653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.40  E-value=1.5e-06  Score=62.42  Aligned_cols=81  Identities=15%  Similarity=0.111  Sum_probs=59.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          421 KEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       421 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      ...+..++..+...|++++|...++++.  .+.+...+..++.++...|++++|+..++++++++|.++.++..++.++.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~   88 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            4556666777777777777777776653  33456677777778888888888888888888888888888888888776


Q ss_pred             hcC
Q 044352          499 ADG  501 (544)
Q Consensus       499 ~~g  501 (544)
                      +.|
T Consensus        89 ~~g   91 (91)
T 1na3_A           89 KQG   91 (91)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            654

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.38  E-value=1.1e-06  Score=69.08  Aligned_cols=73  Identities=12%  Similarity=-0.073  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC-C-------CCC-hhHH----HHHHHHHhhcCChHHHHHHHHHHHHcCCCCchh
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP-M-------YVT-NSMA----GAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDG  489 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~-------~~~-~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  489 (544)
                      .|..+..++.+.|++++|+..++++. .       .|+ ...|    ...+.++...|++++|+..|+++++++|++...
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~  138 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  138 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHH
Confidence            67777777778888877777776653 2       554 5578    889999999999999999999999999988776


Q ss_pred             HHHHHH
Q 044352          490 FVMLSN  495 (544)
Q Consensus       490 ~~~l~~  495 (544)
                      ...+..
T Consensus       139 ~~~~~~  144 (159)
T 2hr2_A          139 TPGKER  144 (159)
T ss_dssp             CTTHHH
T ss_pred             HHHHHH
Confidence            655443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.37  E-value=9.2e-07  Score=66.93  Aligned_cols=64  Identities=9%  Similarity=0.004  Sum_probs=38.7

Q ss_pred             ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          452 TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       452 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      +...+..++..+...|++++|+..++++++++|.++.++..++.++...|++++|+..|+++++
T Consensus        18 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A           18 NMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555566666666666666666666666666666666666666666666666665554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.36  E-value=2.9e-06  Score=60.66  Aligned_cols=70  Identities=13%  Similarity=0.058  Sum_probs=61.3

Q ss_pred             CCChhHHHHHHHHHhhcCC---hHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 044352          450 YVTNSMAGAFRNGCNIHGR---RDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQ  519 (544)
Q Consensus       450 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  519 (544)
                      +.++..+..++.++...++   .++|..+++++++++|+++.++..+|..+.+.|++++|+.+|+++++.+..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4567788888887764444   799999999999999999999999999999999999999999999987644

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.35  E-value=2.1e-06  Score=69.33  Aligned_cols=133  Identities=11%  Similarity=0.029  Sum_probs=80.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc----hh
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEEGM-RAN----EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS----KE  422 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~  422 (544)
                      ++..+...+...|++++|+..+++..+... .++    ..++..+...+...|++++|...+++..+.....++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            445555556666666666666666554210 011    124555666666677777777777665543111111    34


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC----CCCC----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCC
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP----MYVT----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGL  484 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  484 (544)
                      .+..++..+...|++++|.+.+++..    ...+    ...+..++..+...|++++|...+++++++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  160 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  160 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH
Confidence            55666777777777777777776642    1111    33566777788889999999999998887643

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.33  E-value=1.1e-06  Score=84.57  Aligned_cols=141  Identities=10%  Similarity=-0.005  Sum_probs=86.5

Q ss_pred             ccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCC---------------chhHHHHH
Q 044352           25 KSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPN---------------VFMLNWMV   85 (544)
Q Consensus        25 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~---------------~~~~~~l~   85 (544)
                      ..++++.|+..++...+. +.... .+..++..+.+.|++++|+..|++..   +.+               ..+|..+.
T Consensus       246 ~l~~~~~A~~~~~~~~~~~~~~a~-~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla  324 (457)
T 1kt0_A          246 TLKSFEKAKESWEMDTKEKLEQAA-IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLA  324 (457)
T ss_dssp             EEEEEECCCCGGGSCHHHHHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhcccCcchhhcCHHHHHHHHH-HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHH
Confidence            445667777777776666 44455 77888888888888888888888765   333               35566666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHH
Q 044352           86 MASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLC  165 (544)
Q Consensus        86 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  165 (544)
                      .++.+.|++++|+..+++.++... .+...|..+..++...|++++|...|+++++.. +.+..++..+..++...++.+
T Consensus       325 ~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~  402 (457)
T 1kt0_A          325 MCYLKLREYTKAVECCDKALGLDS-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHN  402 (457)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHH
Confidence            666666666666666666665321 244455555666666666666666666666553 334445555555555555555


Q ss_pred             HHH
Q 044352          166 SAR  168 (544)
Q Consensus       166 ~A~  168 (544)
                      ++.
T Consensus       403 ~a~  405 (457)
T 1kt0_A          403 ERD  405 (457)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.32  E-value=7.2e-06  Score=78.71  Aligned_cols=159  Identities=6%  Similarity=-0.032  Sum_probs=118.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCC----------------HHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCch
Q 044352          358 GCYGKHGMVDSSIELFERMLEEGMRAN----------------EVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISK  421 (544)
Q Consensus       358 ~~~~~~g~~~~A~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  421 (544)
                      ..+...|++++|++.|.++.+......                ...+..+...|...|++++|.+.+..+.+..+..++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            445667888888888888877421111                1247788899999999999999999887653333332


Q ss_pred             h----HHHHHHHHHHhcCCHHHHHHHHHhCC-------CCC-ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC------
Q 044352          422 E----HYACVVDMLCRSGRMVEAYDLLRQVP-------MYV-TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG------  483 (544)
Q Consensus       422 ~----~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------  483 (544)
                      .    +.+.+...+...|++++|.++++...       ..+ ...++..++..+...|++++|..+++++...-      
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence            2    33344555567889999999987652       222 24577888999999999999999999998742      


Q ss_pred             CCCchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          484 LRKPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       484 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      |....++..++.+|...|++++|..++++....
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~  204 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTA  204 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            223457888999999999999999999998753

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.29  E-value=8e-06  Score=63.88  Aligned_cols=110  Identities=8%  Similarity=-0.046  Sum_probs=67.1

Q ss_pred             chHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhh----cCChHHHHHH
Q 044352          400 LVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNI----HGRRDLAVTM  475 (544)
Q Consensus       400 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~  475 (544)
                      ++++|..+|++..+. + .+.  ..  +...|...+..++|.+.|++.....++.+...+...|..    .+++++|+.+
T Consensus        10 d~~~A~~~~~~aa~~-g-~~~--a~--lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~   83 (138)
T 1klx_A           10 DLKKAIQYYVKACEL-N-EMF--GC--LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   83 (138)
T ss_dssp             HHHHHHHHHHHHHHT-T-CTT--HH--HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHcC-C-CHh--hh--HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHH
Confidence            455555555555543 3 122  11  555555555555566666555434455666666666665    6677777777


Q ss_pred             HHHHHHcCCCCchhHHHHHHHHHh----cCChHHHHHHHHHHHhcC
Q 044352          476 GEEFFEMGLRKPDGFVMLSNICAA----DGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       476 ~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  517 (544)
                      |+++.+.  .++.++..|+.+|..    .+++++|+.+|++..+.|
T Consensus        84 ~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           84 YSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            7777765  356777777777777    677777777777776655

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.25  E-value=2.9e-06  Score=79.03  Aligned_cols=66  Identities=14%  Similarity=-0.094  Sum_probs=61.9

Q ss_pred             ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          452 TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       452 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +..++..++.+|.+.|++++|+..++++++++|+++.++..++.+|...|++++|+..|+++++..
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~  337 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  337 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            456788899999999999999999999999999999999999999999999999999999998764

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.20  E-value=6.3e-06  Score=61.62  Aligned_cols=67  Identities=13%  Similarity=0.033  Sum_probs=62.1

Q ss_pred             ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 044352          452 TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNV  518 (544)
Q Consensus       452 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  518 (544)
                      +...+..++..+...|++++|+..|+++++++|.++.++..++.++.+.|++++|+..++++++...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p   69 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTS   69 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC
Confidence            4567888889999999999999999999999999999999999999999999999999999987653

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.17  E-value=2.3e-06  Score=67.16  Aligned_cols=92  Identities=10%  Similarity=-0.044  Sum_probs=60.5

Q ss_pred             CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCH----------HHHHHHHHhCC--CCCChhHHHHHHHHHhh
Q 044352          398 GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRM----------VEAYDLLRQVP--MYVTNSMAGAFRNGCNI  465 (544)
Q Consensus       398 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----------~~A~~~~~~~~--~~~~~~~~~~l~~~~~~  465 (544)
                      .+.+++|.+.++...+.  -+.+...|..++.++...+++          ++|+..|+++.  .+....+|..++.+|..
T Consensus        15 ~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           15 ILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHH
Confidence            34556666666666553  244555666666666655543          46777776653  34455677777777766


Q ss_pred             c-----------CChHHHHHHHHHHHHcCCCCchhHH
Q 044352          466 H-----------GRRDLAVTMGEEFFEMGLRKPDGFV  491 (544)
Q Consensus       466 ~-----------g~~~~A~~~~~~~~~~~p~~~~~~~  491 (544)
                      .           |++++|+..|+++++++|++.....
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~  129 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLK  129 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHH
Confidence            5           5899999999999999998764433

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.09  E-value=1.3e-05  Score=57.31  Aligned_cols=66  Identities=17%  Similarity=0.185  Sum_probs=61.1

Q ss_pred             ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          452 TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       452 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +...+..++..+...|++++|+..++++++.+|.++.++..++.++.+.|++++|+..++++.+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~   73 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD   73 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            345778888899999999999999999999999999999999999999999999999999998764

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.08  E-value=9e-06  Score=61.33  Aligned_cols=81  Identities=11%  Similarity=-0.130  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHH
Q 044352          403 KGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFF  480 (544)
Q Consensus       403 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  480 (544)
                      .|+..|++..+  ..+.+...+..++.+|...|++++|...|+++.  .+.+...+..++.++...|++++|+..|++++
T Consensus         3 ~a~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLA--QGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHT--TTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--hCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35556666654  234456677777777777777777777777653  34456677888888888889999999999888


Q ss_pred             HcCCC
Q 044352          481 EMGLR  485 (544)
Q Consensus       481 ~~~p~  485 (544)
                      ++.|.
T Consensus        81 ~~~~~   85 (115)
T 2kat_A           81 AAAQS   85 (115)
T ss_dssp             HHHHH
T ss_pred             Hhccc
Confidence            88764

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=98.00  E-value=7e-06  Score=59.92  Aligned_cols=81  Identities=14%  Similarity=0.016  Sum_probs=59.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHhCC--CCCChh-HHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCCh
Q 044352          427 VVDMLCRSGRMVEAYDLLRQVP--MYVTNS-MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEW  503 (544)
Q Consensus       427 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  503 (544)
                      .+..+.+.|++++|.+.++++.  .+.+.. .+..++.++...|++++|+..|+++++++|+++.++..        +.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            4556777788888888887763  344556 77888888888889999999999999888888877633        455


Q ss_pred             HHHHHHHHHHHh
Q 044352          504 HEAENLRKIMKE  515 (544)
Q Consensus       504 ~~A~~~~~~~~~  515 (544)
                      .++...|++..+
T Consensus        78 ~~a~~~~~~~~~   89 (99)
T 2kc7_A           78 MDILNFYNKDMY   89 (99)
T ss_dssp             HHHHHHHCCTTH
T ss_pred             HHHHHHHHHHhc
Confidence            666666655443

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.99  E-value=0.0001  Score=57.46  Aligned_cols=112  Identities=10%  Similarity=-0.049  Sum_probs=94.9

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----cCCHHH
Q 044352          364 GMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR----SGRMVE  439 (544)
Q Consensus       364 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  439 (544)
                      +++++|+..|++..+.| .|...    +...|...+.+++|.++|++..+.    .+...+..+...|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            46889999999999987 33333    677777888889999999999874    467788889999988    899999


Q ss_pred             HHHHHHhCCCCCChhHHHHHHHHHhh----cCChHHHHHHHHHHHHcCC
Q 044352          440 AYDLLRQVPMYVTNSMAGAFRNGCNI----HGRRDLAVTMGEEFFEMGL  484 (544)
Q Consensus       440 A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p  484 (544)
                      |.++|++.....++.+...+...|..    .+++++|+.+|+++.+.+.
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            99999998656788889999999988    8999999999999999864

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.87  E-value=2.5e-05  Score=75.01  Aligned_cols=83  Identities=8%  Similarity=-0.011  Sum_probs=44.4

Q ss_pred             hhccchhhhhhHHhHHHhhc--------ccchhhHHHHHHHHhhcCCChHHHHHHhccCC--------CC---CchhHHH
Q 044352           23 CMKSKALRQGKQVHALLCTN--------DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP--------NP---NVFMLNW   83 (544)
Q Consensus        23 ~~~~g~~~~A~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~---~~~~~~~   83 (544)
                      +..+|++++|..+++++++.        .|+...+++.++.+|...|++++|+.++++..        +.   ...+++.
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            34556666666666666554        22233355566666666666666666555432        11   1224555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Q 044352           84 MVMASAFTGNFQEAIGYFSLMR  105 (544)
Q Consensus        84 l~~~~~~~~~~~~A~~~~~~~~  105 (544)
                      |...|...|++++|+.++++..
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al  420 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAY  420 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHH
Confidence            5555555566655555555544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.87  E-value=4.7e-05  Score=55.39  Aligned_cols=62  Identities=21%  Similarity=0.221  Sum_probs=56.7

Q ss_pred             HHHHHHhhcCChHHHHHHHHHHHHcCCCCch-hHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 044352          458 AFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD-GFVMLSNICAADGEWHEAENLRKIMKEKNVQ  519 (544)
Q Consensus       458 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  519 (544)
                      ..+..+...|++++|+..++++++.+|.++. ++..++.++...|++++|+..|+++++.+..
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~   67 (99)
T 2kc7_A            5 KTIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPD   67 (99)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            3556788999999999999999999999999 9999999999999999999999999987543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.80  E-value=2.7e-05  Score=56.91  Aligned_cols=64  Identities=9%  Similarity=-0.044  Sum_probs=48.3

Q ss_pred             CCCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccC
Q 044352            9 NNLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKI   73 (544)
Q Consensus         9 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~   73 (544)
                      +|.++.++..++.++...|++++|+..++++++. |.+.. ++..++.+|...|++++|+..|++.
T Consensus         3 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~-a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            3 DPEDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVG-TYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             --CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTH-HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHH-HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4566777888888888888888888888888887 55566 7788888888888888888777764

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.78  E-value=4.8e-05  Score=71.81  Aligned_cols=82  Identities=11%  Similarity=0.007  Sum_probs=61.0

Q ss_pred             cCCHHHHHHHHHhCC---------CCCC-hhHHHHHHHHHhhcCChHHHHHHHHHHHH-----cCCCCch---hHHHHHH
Q 044352          434 SGRMVEAYDLLRQVP---------MYVT-NSMAGAFRNGCNIHGRRDLAVTMGEEFFE-----MGLRKPD---GFVMLSN  495 (544)
Q Consensus       434 ~g~~~~A~~~~~~~~---------~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~---~~~~l~~  495 (544)
                      .|++++|..++++..         ..|+ ..+++.++.+|...|++++|+.+++++++     ++|++|.   .++.|+.
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            456666666665431         2222 24677888888899999999999999887     4566665   4778899


Q ss_pred             HHHhcCChHHHHHHHHHHHh
Q 044352          496 ICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       496 ~~~~~g~~~~A~~~~~~~~~  515 (544)
                      +|..+|++++|+.+++++++
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            99999999999999988875

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.67  E-value=0.00017  Score=68.20  Aligned_cols=88  Identities=10%  Similarity=0.103  Sum_probs=65.9

Q ss_pred             HHHHHhcCCHHHHHHHHHhCC------CCCC----hhHHHHHHHHHhhcCChHHHHHHHHHHHH-----cCCCCch---h
Q 044352          428 VDMLCRSGRMVEAYDLLRQVP------MYVT----NSMAGAFRNGCNIHGRRDLAVTMGEEFFE-----MGLRKPD---G  489 (544)
Q Consensus       428 ~~~~~~~g~~~~A~~~~~~~~------~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~---~  489 (544)
                      +..+.+.|++++|..++++..      ..++    ..+++.++.+|...|++++|+.+++++++     ++|++|.   .
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            334556778888887776541      1222    24677888888999999999999998887     4466665   4


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHh
Q 044352          490 FVMLSNICAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       490 ~~~l~~~~~~~g~~~~A~~~~~~~~~  515 (544)
                      +..|+.+|..+|++++|+.+++++++
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            77788999999999999999988864

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.63  E-value=0.00022  Score=67.35  Aligned_cols=96  Identities=10%  Similarity=-0.084  Sum_probs=69.3

Q ss_pred             cCCchHHHHHHHHHHHHHhC--CCC----chhHHHHHHHHHHhcCCHHHHHHHHHhCC---------CCCC-hhHHHHHH
Q 044352          397 HGGLVEKGLEIFRSMKERYG--VKI----SKEHYACVVDMLCRSGRMVEAYDLLRQVP---------MYVT-NSMAGAFR  460 (544)
Q Consensus       397 ~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~-~~~~~~l~  460 (544)
                      ..|++++|+.++++..+...  +.|    ...+++.++.+|...|++++|..+++++.         ..|+ ..+++.++
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            45677888887777665321  112    23567778888888888888888877652         3333 34678899


Q ss_pred             HHHhhcCChHHHHHHHHHHHH-----cCCCCchhHHH
Q 044352          461 NGCNIHGRRDLAVTMGEEFFE-----MGLRKPDGFVM  492 (544)
Q Consensus       461 ~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~~~~~  492 (544)
                      ..|...|++++|+.+++++++     ++|++|.+-..
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~l  426 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYISEI  426 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHHHH
Confidence            999999999999999999987     56888776553

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.60  E-value=0.0011  Score=59.92  Aligned_cols=132  Identities=8%  Similarity=-0.009  Sum_probs=76.2

Q ss_pred             CCCCcchHHHHHHHhhc-----cchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcC---C-----C---hHHHHHHhcc
Q 044352            9 NNLSVNYLDCLLGKCMK-----SKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGC---G-----D---VNSARLVFDK   72 (544)
Q Consensus         9 ~~~~~~~~~~l~~~~~~-----~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g-----~---~~~A~~~~~~   72 (544)
                      .|.+..+|...+++...     ..++.+|+.+|+++++..|+...++..+..+|...   +     .   ...|......
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            44566777777766442     23567899999999999444332777666655411   1     0   0111111111


Q ss_pred             CC--CCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHc
Q 044352           73 IP--NPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQM  142 (544)
Q Consensus        73 ~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  142 (544)
                      +.  +.++.+|..+...+...|++++|+..+++++..+  |+...|..+...+.-.|++++|...+++....
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            11  4555566666555555666666666666666643  55555555556666666666666666666665

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.58  E-value=0.0031  Score=56.99  Aligned_cols=66  Identities=11%  Similarity=0.048  Sum_probs=37.2

Q ss_pred             CChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          451 VTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       451 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .++.++..+...+...|++++|+..++++++++| +...|..+++++.-.|++++|.+.|+++...+
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~-s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~  340 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLEM-SWLNYVLLGKVYEMKGMNREAADAYLTAFNLR  340 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            3444555444444455666666666666666664 34455555666666666666666666655543

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=97.56  E-value=0.077  Score=52.33  Aligned_cols=114  Identities=12%  Similarity=0.008  Sum_probs=74.0

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHH----HHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH
Q 044352          364 GMVDSSIELFERMLEEGMRANEVT----LISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVE  439 (544)
Q Consensus       364 g~~~~A~~~~~~~~~~~~~~~~~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  439 (544)
                      .+.+.|...+....... ..+...    ...+.......+...++...+......   ..+.......+....+.|+++.
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~  303 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRG  303 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHH
Confidence            47888999998886543 223332    222333334445356666677665432   3444445555555667899999


Q ss_pred             HHHHHHhCCCCC--ChhHHHHHHHHHhhcCChHHHHHHHHHHHH
Q 044352          440 AYDLLRQVPMYV--TNSMAGAFRNGCNIHGRRDLAVTMGEEFFE  481 (544)
Q Consensus       440 A~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  481 (544)
                      |...|+.++..+  .......++.++...|+.++|..+|+++.+
T Consensus       304 a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            999999987432  244456677788888999999999999875

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.51  E-value=4.4e-06  Score=76.72  Aligned_cols=119  Identities=13%  Similarity=0.065  Sum_probs=91.4

Q ss_pred             cchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHh
Q 044352           44 LNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKAC  123 (544)
Q Consensus        44 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~  123 (544)
                      ..+. +|..++.+....|++.+|++.|-+  ..|+..|..++.+..+.|.+++-+..+....+..-  ++..=+.++-+|
T Consensus        52 n~p~-VWs~LgkAqL~~~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ay  126 (624)
T 3lvg_A           52 NEPA-VWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFAL  126 (624)
T ss_dssp             CCCC-CSSSHHHHTTTSSSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHH
T ss_pred             CCcc-HHHHHHHHHHccCchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHH
Confidence            3445 889999999999999999886644  45667788999999999999999999988876533  334445788889


Q ss_pred             hCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhc
Q 044352          124 VGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGM  174 (544)
Q Consensus       124 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  174 (544)
                      ++.++..+..+.+       -.|+..-...+..-|...|.++.|.-+|..+
T Consensus       127 Ak~~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~i  170 (624)
T 3lvg_A          127 AKTNRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV  170 (624)
T ss_dssp             HTSCSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGS
T ss_pred             HhhCcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhC
Confidence            9998877655443       2466666677888888889998888888776

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.49  E-value=0.00048  Score=65.13  Aligned_cols=100  Identities=11%  Similarity=-0.070  Sum_probs=68.9

Q ss_pred             HHHhcCCchHHHHHHHHHHHHHhC--CCC----chhHHHHHHHHHHhcCCHHHHHHHHHhCC---------CCCC-hhHH
Q 044352          393 SACSHGGLVEKGLEIFRSMKERYG--VKI----SKEHYACVVDMLCRSGRMVEAYDLLRQVP---------MYVT-NSMA  456 (544)
Q Consensus       393 ~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~-~~~~  456 (544)
                      ..+...|++++|+.++++..+...  +.|    ...+++.++.+|...|++++|..+++++.         ..|+ ..++
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            334456677777777777654311  112    13456777777777888888877777642         2333 3467


Q ss_pred             HHHHHHHhhcCChHHHHHHHHHHHH-----cCCCCchhHHH
Q 044352          457 GAFRNGCNIHGRRDLAVTMGEEFFE-----MGLRKPDGFVM  492 (544)
Q Consensus       457 ~~l~~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~~~~~  492 (544)
                      +.++..|...|++++|+.+++++++     ++|++|.+...
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~  415 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDL  415 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            8888899999999999999999987     56888876654

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.45  E-value=0.01  Score=43.98  Aligned_cols=140  Identities=11%  Similarity=0.092  Sum_probs=93.2

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 044352          361 GKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEA  440 (544)
Q Consensus       361 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  440 (544)
                      .-.|..++..++..+....   .+..-++.++--....-+-+-..++++.+-+.|.+.              .+|+....
T Consensus        18 ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis--------------~C~NlKrV   80 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLD--------------KCQNLKSV   80 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGG--------------GCSCTHHH
T ss_pred             HHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhcCcH--------------hhhcHHHH
Confidence            3456777777777766653   344555555555555555555555555553322111              23333333


Q ss_pred             HHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 044352          441 YDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQ  519 (544)
Q Consensus       441 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  519 (544)
                      ...+-.+.  .+.......+..+...|+.++-.+++...+.-+|.+|..+..++.+|.+.|+..+|.++++++-++|++
T Consensus        81 i~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           81 VECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            33333332  244445555667888999999999999987777889999999999999999999999999999999874

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.43  E-value=0.00055  Score=59.16  Aligned_cols=87  Identities=10%  Similarity=0.043  Sum_probs=65.8

Q ss_pred             HHHHHHHHhCC-CCCC---hhHHHHHHHHHhh-----cCChHHHHHHHHHHHHcCCCC-chhHHHHHHHHHhc-CChHHH
Q 044352          438 VEAYDLLRQVP-MYVT---NSMAGAFRNGCNI-----HGRRDLAVTMGEEFFEMGLRK-PDGFVMLSNICAAD-GEWHEA  506 (544)
Q Consensus       438 ~~A~~~~~~~~-~~~~---~~~~~~l~~~~~~-----~g~~~~A~~~~~~~~~~~p~~-~~~~~~l~~~~~~~-g~~~~A  506 (544)
                      .+|...++++. ..|+   ...|..++..|..     -|+.++|.++|+++++++|+. ..++..++..+++. |+.++|
T Consensus       180 ~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a  259 (301)
T 3u64_A          180 HAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGF  259 (301)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHH
Confidence            34555555542 3333   4567777777777     489999999999999999964 99999999998884 999999


Q ss_pred             HHHHHHHHhcCCCCCCCc
Q 044352          507 ENLRKIMKEKNVQKQPGF  524 (544)
Q Consensus       507 ~~~~~~~~~~~~~~~~~~  524 (544)
                      .+++++.+......+|++
T Consensus       260 ~~~L~kAL~a~p~~~P~~  277 (301)
T 3u64_A          260 DEALDRALAIDPESVPHN  277 (301)
T ss_dssp             HHHHHHHHHCCGGGCSSC
T ss_pred             HHHHHHHHcCCCCCCCCh
Confidence            999999988777655553

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.41  E-value=0.00034  Score=54.18  Aligned_cols=92  Identities=14%  Similarity=-0.019  Sum_probs=72.7

Q ss_pred             CchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC---CHHHHHHHHHhCC-CC-C--ChhHHHHHHHHHhhcCChHH
Q 044352          399 GLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSG---RMVEAYDLLRQVP-MY-V--TNSMAGAFRNGCNIHGRRDL  471 (544)
Q Consensus       399 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~-~~-~--~~~~~~~l~~~~~~~g~~~~  471 (544)
                      +....+.+.|.+..+.  -+++..+...+..++++.+   +.++++.+++.+. .. |  ....+..++-++.+.|++++
T Consensus        12 ~~l~~~~~~y~~e~~~--~~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHHT--TCCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHcc--CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHH
Confidence            3556677777776653  3478889999999999988   6669999998864 22 4  35678888889999999999


Q ss_pred             HHHHHHHHHHcCCCCchhHHH
Q 044352          472 AVTMGEEFFEMGLRKPDGFVM  492 (544)
Q Consensus       472 A~~~~~~~~~~~p~~~~~~~~  492 (544)
                      |+++++.+++.+|+|..+...
T Consensus        90 A~~y~~~lL~ieP~n~QA~~L  110 (152)
T 1pc2_A           90 ALKYVRGLLQTEPQNNQAKEL  110 (152)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHhcCCCCHHHHHH
Confidence            999999999999987766554

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.40  E-value=0.0007  Score=52.45  Aligned_cols=67  Identities=13%  Similarity=0.007  Sum_probs=42.7

Q ss_pred             CCChhHHHHHHHHHhhcC---ChHHHHHHHHHHHHcC-C-CCchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          450 YVTNSMAGAFRNGCNIHG---RRDLAVTMGEEFFEMG-L-RKPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       450 ~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      +++..+...++.++.+.+   +.++++.++++.++.+ | .+.+.+..|+.++.+.|++++|+++++.+++.
T Consensus        29 ~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~i  100 (152)
T 1pc2_A           29 SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  100 (152)
T ss_dssp             CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            355666666666666665   4556666666666666 5 34566666666666666666666666666654

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.40  E-value=0.0009  Score=48.97  Aligned_cols=73  Identities=11%  Similarity=0.024  Sum_probs=50.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhCC---------CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHH
Q 044352          422 EHYACVVDMLCRSGRMVEAYDLLRQVP---------MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVM  492 (544)
Q Consensus       422 ~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  492 (544)
                      ..+..++..+.+.|++..|...|+.+.         ..+....+..++.++.+.|++++|...++++++++|+++.+...
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~n   85 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGN   85 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHhh
Confidence            334455555555555555555554431         12345677888889999999999999999999999998887666


Q ss_pred             HH
Q 044352          493 LS  494 (544)
Q Consensus       493 l~  494 (544)
                      +.
T Consensus        86 ~~   87 (104)
T 2v5f_A           86 LK   87 (104)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.36  E-value=0.00087  Score=49.03  Aligned_cols=66  Identities=15%  Similarity=-0.011  Sum_probs=57.2

Q ss_pred             ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC-------CCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          452 TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG-------LRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       452 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +......++..+...|+++.|+.+|+++++..       +..+.++..|+.++.+.|++++|+.+++++++..
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            45566788899999999999999999999853       3456789999999999999999999999998754

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.35  E-value=0.0016  Score=46.20  Aligned_cols=70  Identities=14%  Similarity=-0.012  Sum_probs=55.0

Q ss_pred             CCchhHHHHHHHHHHhcCC---HHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCc
Q 044352          418 KISKEHYACVVDMLCRSGR---MVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKP  487 (544)
Q Consensus       418 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  487 (544)
                      +.++..+..++.++...++   .++|..+++++.  .+.++.+...++..+...|++++|+..|+++++.+|+++
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~~~   77 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPNL   77 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTTC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCc
Confidence            4566777777777764444   688888888764  556677888888899999999999999999999998733

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.99  E-value=2.9e-05  Score=71.42  Aligned_cols=244  Identities=9%  Similarity=0.016  Sum_probs=135.9

Q ss_pred             CCcchHHHHHHHhhccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCC--CCCchhHHHHHHHH
Q 044352           11 LSVNYLDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP--NPNVFMLNWMVMAS   88 (544)
Q Consensus        11 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~   88 (544)
                      ..+.+|..|+.+..+.+.+.+|+..|   ++. .|+. .+..++.+..+.|.+++-+..++-..  ..++..=+.|+-+|
T Consensus        52 n~p~VWs~LgkAqL~~~~v~eAIdsy---IkA-~Dps-~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ay  126 (624)
T 3lvg_A           52 NEPAVWSQLAKAQLQKGMVKEAIDSY---IKA-DDPS-SYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFAL  126 (624)
T ss_dssp             CCCCCSSSHHHHTTTSSSCTTTTTSS---CCC-SCCC-SSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHH
T ss_pred             CCccHHHHHHHHHHccCchHHHHHHH---HhC-CChH-HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            35566777777777777666665544   222 2222 34666777777777777777666555  34455556677777


Q ss_pred             HhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHc--------------------CCCCCh
Q 044352           89 AFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQM--------------------GFENDV  148 (544)
Q Consensus        89 ~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------------------~~~~~~  148 (544)
                      ++.++..+-.++    +   -.|+..-...+..-|...|.++.|.-+|..+...                    .-..++
T Consensus       127 Ak~~rL~elEef----l---~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~  199 (624)
T 3lvg_A          127 AKTNRLAELEEF----I---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANST  199 (624)
T ss_dssp             HTSCSSSTTTST----T---SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSS
T ss_pred             HhhCcHHHHHHH----H---cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCCh
Confidence            776664332221    1   1234434444444454555555444444322111                    013456


Q ss_pred             hHHHHHHHHHHhCCCHHHHHHHHhhc-cCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc
Q 044352          149 SVGNALIDMYSKCGLLCSARRVFHGM-FERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARR  227 (544)
Q Consensus       149 ~~~~~l~~~~~~~~~~~~A~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  227 (544)
                      .+|..+-.+|...+.+.-|...--.+ ..+|.  ...++..|-..|.+++.+.+++.-.... ......|+-|.-.|++-
T Consensus       200 ktWKeV~~ACvd~~EfrLAqicGLniIvhade--L~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY  276 (624)
T 3lvg_A          200 RTWKEVCFACVDGKEFRLAQMCGLHIVVHADE--LEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  276 (624)
T ss_dssp             CSHHHHTHHHHHSCTTTTTTHHHHHHHCCSSC--CSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS
T ss_pred             hHHHHHHHHHhCchHHHHHHHhcchhcccHHH--HHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc
Confidence            67777777777777776655433222 12211  1234455777888888888888765321 34566788777777764


Q ss_pred             CChHHHHHHHHHhhh-CCCCC------CHhHHHHHHHHHHcCCCHHHHHH
Q 044352          228 GDSNAAFAFFSRMTA-EGFVP------DLVTWNAMISGFAQSKRENEALK  270 (544)
Q Consensus       228 ~~~~~a~~~~~~~~~-~~~~~------~~~~~~~l~~~~~~~~~~~~a~~  270 (544)
                       ++++..+.++..-. .+++.      ....|.-++..|.+-.++|.|..
T Consensus       277 -~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          277 -KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             -CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             -CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence             44444444443222 23222      23457777777777777776653

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.96  E-value=0.042  Score=57.20  Aligned_cols=151  Identities=13%  Similarity=0.050  Sum_probs=89.9

Q ss_pred             HHhCCCHHHHHH-HHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHH
Q 044352          158 YSKCGLLCSARR-VFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAF  236 (544)
Q Consensus       158 ~~~~~~~~~A~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  236 (544)
                      ....+++++|.+ ++..+.  +......++..+.+.|.++.|+++.+.       |.     .-.......|+++.|.++
T Consensus       609 ~~~~~~~~~a~~~~l~~i~--~~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~~~A~~~  674 (814)
T 3mkq_A          609 LTLRGEIEEAIENVLPNVE--GKDSLTKIARFLEGQEYYEEALNISPD-------QD-----QKFELALKVGQLTLARDL  674 (814)
T ss_dssp             HHHTTCHHHHHHHTGGGCC--CHHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHhcCC--chHHHHHHHHHHHhCCChHHheecCCC-------cc-----hheehhhhcCCHHHHHHH
Confidence            345677887777 554333  012226666667777887777766532       11     112344567888888887


Q ss_pred             HHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCC
Q 044352          237 FSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLH  316 (544)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (544)
                      .+.+      .+...|..+...+.+.++++.|.+.|.++.+         +..+...+...++.+...++.+.....|  
T Consensus       675 ~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~--  737 (814)
T 3mkq_A          675 LTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG--  737 (814)
T ss_dssp             HTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT--
T ss_pred             HHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC--
Confidence            6543      4667888888888889999998888887642         2233444444556655555544444433  


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 044352          317 IDVFTGSALIDMYSKCGSLKDARTLFE  343 (544)
Q Consensus       317 ~~~~~~~~l~~~~~~~~~~~~A~~~~~  343 (544)
                          .+.....+|.+.|++++|.+++.
T Consensus       738 ----~~~~A~~~~~~~g~~~~a~~~~~  760 (814)
T 3mkq_A          738 ----KFNLAFNAYWIAGDIQGAKDLLI  760 (814)
T ss_dssp             ----CHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             ----chHHHHHHHHHcCCHHHHHHHHH
Confidence                12233334555666666655543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.94  E-value=0.058  Score=56.09  Aligned_cols=101  Identities=21%  Similarity=0.199  Sum_probs=62.1

Q ss_pred             HHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHH
Q 044352          328 MYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEI  407 (544)
Q Consensus       328 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  407 (544)
                      .....|+++.|.++.+.+.  +...|..+...+.+.|+++.|.+.|.++..         +..+...+...|+.+...++
T Consensus       661 ~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~  729 (814)
T 3mkq_A          661 LALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTL  729 (814)
T ss_dssp             HHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHH
T ss_pred             hhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHH
Confidence            3456788888888776553  456788888888888888888888887644         33444444556666655554


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHh
Q 044352          408 FRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQ  446 (544)
Q Consensus       408 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  446 (544)
                      .+..... |      .++....+|.+.|++++|.+++.+
T Consensus       730 ~~~a~~~-~------~~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          730 AKDAETT-G------KFNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHc-C------chHHHHHHHHHcCCHHHHHHHHHH
Confidence            4444332 1      123333445566676666665544

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.84  E-value=0.023  Score=42.24  Aligned_cols=92  Identities=14%  Similarity=-0.010  Sum_probs=62.9

Q ss_pred             chHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH---HHHHHHhCCCC--C--ChhHHHHHHHHHhhcCChHHH
Q 044352          400 LVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVE---AYDLLRQVPMY--V--TNSMAGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       400 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~--~--~~~~~~~l~~~~~~~g~~~~A  472 (544)
                      .+..+.+-|...... + .++..+-..+..++.+.....+   ++.+++.+...  |  .......++-++.+.|++++|
T Consensus        16 ~l~~~~~~y~~e~~~-~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHH-S-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHH
Confidence            344455555554443 3 3666677777777777766555   67777765422  2  234566777789999999999


Q ss_pred             HHHHHHHHHcCCCCchhHHHH
Q 044352          473 VTMGEEFFEMGLRKPDGFVML  493 (544)
Q Consensus       473 ~~~~~~~~~~~p~~~~~~~~l  493 (544)
                      ++.++.+++.+|.|..+....
T Consensus        94 ~~~~~~lL~~eP~n~QA~~Lk  114 (126)
T 1nzn_A           94 LKYVRGLLQTEPQNNQAKELE  114 (126)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHH
Confidence            999999999999887766543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.40  E-value=0.012  Score=43.83  Aligned_cols=68  Identities=15%  Similarity=0.033  Sum_probs=58.9

Q ss_pred             CCChhHHHHHHHHHhhcCChHH---HHHHHHHHHHcC-C-CCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          450 YVTNSMAGAFRNGCNIHGRRDL---AVTMGEEFFEMG-L-RKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       450 ~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .++..+-..+++++.+.++...   ++.+++..++.+ | .....+..|+.++.+.|+|++|+++++.+++..
T Consensus        32 ~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~e  104 (126)
T 1nzn_A           32 SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTE  104 (126)
T ss_dssp             CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            5788888889999998886666   999999999887 5 466788999999999999999999999998754

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.36  E-value=0.018  Score=43.87  Aligned_cols=106  Identities=12%  Similarity=0.017  Sum_probs=56.5

Q ss_pred             CCCHHHHHHHHHHHhcCCch------HHHHHHHHHHHHHhCCCCchh-HHHHHHHH------HHhcCCHHHHHHHHHhCC
Q 044352          382 RANEVTLISVLSACSHGGLV------EKGLEIFRSMKERYGVKISKE-HYACVVDM------LCRSGRMVEAYDLLRQVP  448 (544)
Q Consensus       382 ~~~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~------~~~~g~~~~A~~~~~~~~  448 (544)
                      +-|+.+|...+....+.|+.      ++.+++|++...  .++|+.. .|...+..      +...++.++|.++|+.+.
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia--~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~   87 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMAR   87 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            34667777777777666777      777777777766  4555421 12222111      123355566666665542


Q ss_pred             --CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchh
Q 044352          449 --MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDG  489 (544)
Q Consensus       449 --~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  489 (544)
                        .+.-.-.|...+..-.++|+...|++++.+++.+.|.....
T Consensus        88 ~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~  130 (161)
T 4h7y_A           88 ANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEM  130 (161)
T ss_dssp             HHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHH
T ss_pred             HHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHH
Confidence              11113344444444455666666666666666665543333

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.28  E-value=0.28  Score=39.04  Aligned_cols=128  Identities=11%  Similarity=0.050  Sum_probs=76.3

Q ss_pred             HHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHH
Q 044352          328 MYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEI  407 (544)
Q Consensus       328 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  407 (544)
                      ...+.|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+...         +..+.-.|...|+.+....+
T Consensus        14 LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kl   82 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKM   82 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHH
Confidence            345678888887777665  4566788888888888888888888877654         34444455556666655555


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHH
Q 044352          408 FRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEF  479 (544)
Q Consensus       408 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  479 (544)
                      -+....+ |      -++....++.-.|+++++.++|.+...-|  .++    ......|-.+.|.++.+++
T Consensus        83 a~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~--eA~----~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           83 QNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGGSLP--LAY----AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTTCHH--HHH----HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCCChH--HHH----HHHHHcCcHHHHHHHHHHh
Confidence            4444332 2      23344455666788888888777654211  111    1122345566666665543

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.18  E-value=0.039  Score=47.81  Aligned_cols=82  Identities=11%  Similarity=-0.019  Sum_probs=50.0

Q ss_pred             hhhhhhHHhHHHhhcccc---hhhHHHHHHHHhhcC-----CChHHHHHHhccCC--CC--CchhHHHHHHHHHhc-CCH
Q 044352           28 ALRQGKQVHALLCTNDLN---IFSLKSKLVGVYAGC-----GDVNSARLVFDKIP--NP--NVFMLNWMVMASAFT-GNF   94 (544)
Q Consensus        28 ~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~--~~--~~~~~~~l~~~~~~~-~~~   94 (544)
                      ....|+..++++++..|+   .. +|..++..|.+.     |+.++|.+.|++..  .|  +..++......+++. |+.
T Consensus       178 ~l~~A~a~lerAleLDP~~~~Gs-A~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          178 TVHAAVMMLERACDLWPSYQEGA-VWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHH-HHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             hHHHHHHHHHHHHHhCCCcccCH-HHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            445566666777776444   34 667777777663     66666666666654  22  255566666666663 666


Q ss_pred             HHHHHHHHHHHhcccc
Q 044352           95 QEAIGYFSLMREFIYR  110 (544)
Q Consensus        95 ~~A~~~~~~~~~~~~~  110 (544)
                      +.+...+++.+.....
T Consensus       257 ~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          257 AGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHcCCCC
Confidence            6666666666664443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.16  E-value=0.19  Score=39.97  Aligned_cols=46  Identities=13%  Similarity=0.120  Sum_probs=24.4

Q ss_pred             hcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044352           58 AGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMR  105 (544)
Q Consensus        58 ~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  105 (544)
                      ...|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+..
T Consensus        16 L~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~   61 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQH   61 (177)
T ss_dssp             HHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhC
Confidence            3455555555554443  234455555555555555555555555554

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.94  E-value=0.038  Score=55.49  Aligned_cols=54  Identities=19%  Similarity=0.130  Sum_probs=50.5

Q ss_pred             HHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          461 NGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       461 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      ..+...|+++-|+++.+++...-|.+-.+|..|+.+|...|+|+.|+-.+..+.
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            456678999999999999999999999999999999999999999999999884

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=95.68  E-value=0.13  Score=38.98  Aligned_cols=75  Identities=12%  Similarity=0.003  Sum_probs=54.9

Q ss_pred             CCCchhHHHHHHHHHHhcCCHH---HHHHHHHhCC-CCC--ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhH
Q 044352          417 VKISKEHYACVVDMLCRSGRMV---EAYDLLRQVP-MYV--TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGF  490 (544)
Q Consensus       417 ~~~~~~~~~~l~~~~~~~g~~~---~A~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  490 (544)
                      -.|+..+-..+..++.+..+.+   +++.+++.+. ..|  .......++-++.+.|++++|+++.+.+++.+|+|..+.
T Consensus        35 ~~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA~  114 (144)
T 1y8m_A           35 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVG  114 (144)
T ss_dssp             TTSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHHH
T ss_pred             CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHH
Confidence            3577788888888888877654   5667776653 222  344666677788899999999999999999999876654


Q ss_pred             H
Q 044352          491 V  491 (544)
Q Consensus       491 ~  491 (544)
                      .
T Consensus       115 ~  115 (144)
T 1y8m_A          115 A  115 (144)
T ss_dssp             H
T ss_pred             H
Confidence            4

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=95.62  E-value=0.12  Score=39.38  Aligned_cols=51  Identities=10%  Similarity=-0.040  Sum_probs=25.2

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          467 GRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       467 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      +|.++|..+|+.++++...-+.+|...+..-.++|+...|++++.+.+..+
T Consensus        74 ~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence            455555555555554433333444444444555555555555555555433

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=95.44  E-value=0.14  Score=40.03  Aligned_cols=129  Identities=9%  Similarity=-0.030  Sum_probs=68.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC-----ccH-------HHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCC-CHH
Q 044352          321 TGSALIDMYSKCGSLKDARTLFEITRI-----KNV-------ASWNAMIGCYGKHGMVDSSIELFERMLEEG-MRA-NEV  386 (544)
Q Consensus       321 ~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~-~~~  386 (544)
                      .+..-+..+...|.++.|+-+.+.+..     +++       .++..+..++...|++.+|...|++.+... .-+ +..
T Consensus        22 ~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s  101 (167)
T 3ffl_A           22 NVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSK  101 (167)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC-----
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            344456666777777777766554331     221       245556667777777777777777765421 111 111


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCChhHHHHHHHHH
Q 044352          387 TLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTNSMAGAFRNGC  463 (544)
Q Consensus       387 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~  463 (544)
                      +...+.    .......          ......+.+.-..+..+|.+.|++++|+.+++.++ ...++..-..|++.|
T Consensus       102 ~~~~~~----~~ss~p~----------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~kvnm~LakLy  165 (167)
T 3ffl_A          102 VRPSTG----NSASTPQ----------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQRTPKINMLLANLY  165 (167)
T ss_dssp             -----------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGGCCHHHHHHHHHHC
T ss_pred             cccccc----ccCCCcc----------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchhcCHHHHHHHHHHh
Confidence            110000    0000000          00223445666678888888888888888888886 334455545554443

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=95.41  E-value=0.048  Score=40.65  Aligned_cols=74  Identities=12%  Similarity=0.011  Sum_probs=50.0

Q ss_pred             CCchhHHHHHHHHHHhcCCHH---HHHHHHHhCC-CCC--ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHH
Q 044352          418 KISKEHYACVVDMLCRSGRMV---EAYDLLRQVP-MYV--TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFV  491 (544)
Q Consensus       418 ~~~~~~~~~l~~~~~~~g~~~---~A~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  491 (544)
                      .|+..+-..+..++.+..+.+   +++.+++.+. ..|  ....+..++-++.+.|++++|+++.+.+++..|+|..+..
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA~~  116 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  116 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHHHH
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHHHH
Confidence            466677777777777776543   4666666542 223  2445666777788888888888888888888887766544

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.22  E-value=3.3  Score=42.68  Aligned_cols=252  Identities=10%  Similarity=-0.011  Sum_probs=132.9

Q ss_pred             HHhcCChHHHHHHHHHhhhCC--CCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC-------CCCHH--HHHHHHH
Q 044352          224 YARRGDSNAAFAFFSRMTAEG--FVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGI-------KPNNV--TVTGVLQ  292 (544)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~--~~~~l~~  292 (544)
                      ....|+.++++.++......+  -.+....-..+.-+....|..+++..++...+...-       .+...  ....+..
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            345566667766666654311  011222333344556667776778888877665321       01111  1122223


Q ss_pred             HhhccCchHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHhcCC-c--cHHHHHHHHHHHHhcCChH
Q 044352          293 AGGLTGSIQIGREIHALVCRMGLHIDV--FTGSALIDMYSKCGSLKDARTLFEITRI-K--NVASWNAMIGCYGKHGMVD  367 (544)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~--~~~~~~~l~~~~~~~g~~~  367 (544)
                      ++...++. ++...+..+....- ...  .+-..+...+.-.|+.+....++..+.. .  +..-...+.-++...|+.+
T Consensus       464 a~~GS~~e-ev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~e  541 (963)
T 4ady_A          464 AAMGSANI-EVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQE  541 (963)
T ss_dssp             HSTTCCCH-HHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCGG
T ss_pred             HhcCCCCH-HHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCChH
Confidence            33434443 44444444443321 111  1222344445567777777777665432 1  2223334444556789999


Q ss_pred             HHHHHHHHHHHcCCCCCHH--HHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHH
Q 044352          368 SSIELFERMLEEGMRANEV--TLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLR  445 (544)
Q Consensus       368 ~A~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  445 (544)
                      .+..+++.+... ..|...  ....+.-+|+..|+.....+++..+.+.  ...+......+.-++...|+.+.+.++++
T Consensus       542 ~~~~li~~L~~~-~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v~rlv~  618 (963)
T 4ady_A          542 LADDLITKMLAS-DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTVPRIVQ  618 (963)
T ss_dssp             GGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSHHHHTT
T ss_pred             HHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHHHHHHH
Confidence            999998888774 223222  2233445677888987777788888763  23333333334444555677766777776


Q ss_pred             hCCCCCChhHH--HHHHHHHhhcCC-hHHHHHHHHHHH
Q 044352          446 QVPMYVTNSMA--GAFRNGCNIHGR-RDLAVTMGEEFF  480 (544)
Q Consensus       446 ~~~~~~~~~~~--~~l~~~~~~~g~-~~~A~~~~~~~~  480 (544)
                      .+....++..-  ..++-+....|+ ..+++..+..+.
T Consensus       619 ~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          619 LLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             TGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            55433344433  333334444444 367777777775

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.06  E-value=0.75  Score=34.34  Aligned_cols=68  Identities=9%  Similarity=0.049  Sum_probs=52.5

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCC
Q 044352          248 DLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLH  316 (544)
Q Consensus       248 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (544)
                      +.......+..+...|+.|+-.+++..+.. +.+|++.....+..+|.+.|+..++.+++.++.+.|++
T Consensus        90 ~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           90 LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            445566677788888888888888888644 34777888888888888888888888888888888754

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.94  E-value=4  Score=42.12  Aligned_cols=400  Identities=10%  Similarity=-0.011  Sum_probs=195.8

Q ss_pred             HHHHHHHhhcCCChHHHHHHhccCC-CCCchhHHHHHHHHHhcCCHHHHHHHHHHH---------Hhc-ccccCHHHHHH
Q 044352           50 KSKLVGVYAGCGDVNSARLVFDKIP-NPNVFMLNWMVMASAFTGNFQEAIGYFSLM---------REF-IYRCNKFTFSI  118 (544)
Q Consensus        50 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~---------~~~-~~~p~~~~~~~  118 (544)
                      |..++++..+.++.+.+.++|..+. ..+...-.-+.--+.+.+.-.--..+.+.+         .+- +-.+....|..
T Consensus       233 y~~a~~~ai~LnD~~li~~if~~l~~~~d~l~ayQiAFdL~~~~~Q~fL~~v~~~l~~~e~~~kL~~ILsg~~~~~Lyl~  312 (963)
T 4ady_A          233 YLTLNKVVVNLNDAGLALQLFKKLKEENDEGLSAQIAFDLVSSASQQLLEILVTELTAQGYDPALLNILSGLPTCDYYNT  312 (963)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHTTCCHHHHHHTTSHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcccchHHHHHHHHhccccchhHHHHHHhCCCChHHHHHH
Confidence            4456777788899999999999865 233332222333334433221111121111         110 00111233333


Q ss_pred             HHHHhhCCCChHHHHHHHHHHHHcCCCC-Ch--hHHHHHHHHHHhCCCHHHH-HHHH-hhccC-CChhhHHH-HHHHHhc
Q 044352          119 VLKACVGLLDIKKGKQVHAVATQMGFEN-DV--SVGNALIDMYSKCGLLCSA-RRVF-HGMFE-RDVVSWTS-MISGYCN  191 (544)
Q Consensus       119 ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~--~~~~~l~~~~~~~~~~~~A-~~~~-~~~~~-~~~~~~~~-l~~~~~~  191 (544)
                      .+.-.. .-+.    .+.+.++.. +.. +.  .+-..+.+++...|-..+. .... +.+.+ .+..-+.+ ..-+...
T Consensus       313 FL~~~n-~~d~----~~l~~~K~~-ld~r~s~~~~A~~f~Naf~naG~~~D~~l~~~~~Wl~k~~~~~k~sA~aSLGlIh  386 (963)
T 4ady_A          313 FLLNNK-NIDI----GLLNKSKSS-LDGKFSLFHTAVSVANGFMHAGTTDNSFIKANLPWLGKAQNWAKFTATASLGVIH  386 (963)
T ss_dssp             HHHHHC-CCCH----HHHHHHHHH-SCTTSHHHHHHHHHHHHHHTTTTCCCHHHHHCHHHHHHCCTHHHHHHHHHHHHHT
T ss_pred             HHHhcc-ccch----hhHHHHHhh-hcchhhHHHHHHHHHHHHHhCCCCcchhhhcchhhhhccchHHHHHHHHHhhhhc
Confidence            333221 1122    122222221 221 11  2234556667776643222 1111 12221 22222222 2335667


Q ss_pred             cCChhHHHHHHHHHHHcC--CCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCC--C-----CCHhHHHHHHHHHHcC
Q 044352          192 VSKVDEAVVLFERMKLEG--LEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGF--V-----PDLVTWNAMISGFAQS  262 (544)
Q Consensus       192 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~-----~~~~~~~~l~~~~~~~  262 (544)
                      .|+.++++.++......+  -.+....-..+.-+....|..+++..++.......-  .     +....-..+.-+++-.
T Consensus       387 ~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGla~~  466 (963)
T 4ady_A          387 KGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLAAM  466 (963)
T ss_dssp             SSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHHHST
T ss_pred             cCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHHHhc
Confidence            889999988887765421  112222223344455566666677777776554310  0     1122223333344433


Q ss_pred             CC-HHHHHHHHHHHHHcCCCCCH--HHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 044352          263 KR-ENEALKLFKGMLVSGIKPNN--VTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDAR  339 (544)
Q Consensus       263 ~~-~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  339 (544)
                      |. -+++.+.+..++...- +..  ..-..+...+...|+.+....++..+.+.. ..+..-...+.-++...|+.+.+.
T Consensus       467 GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~~~  544 (963)
T 4ady_A          467 GSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQELAD  544 (963)
T ss_dssp             TCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGGGH
T ss_pred             CCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHHHH
Confidence            42 2466677777665321 111  112233344567788888888888776642 222222233334445678877777


Q ss_pred             HHHHhcCC-ccHHH-H---HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHH
Q 044352          340 TLFEITRI-KNVAS-W---NAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKER  414 (544)
Q Consensus       340 ~~~~~~~~-~~~~~-~---~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  414 (544)
                      .+++.+.. .++.. |   .++..+|+..|+......++..+... ...+..-...+.-++...|+.+.+.+++..+.+ 
T Consensus       545 ~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d-~~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~-  622 (963)
T 4ady_A          545 DLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD-SNDDVRRAAVIALGFVLLRDYTTVPRIVQLLSK-  622 (963)
T ss_dssp             HHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGG-
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC-CcHHHHHHHHHHHHhhccCCHHHHHHHHHHHHh-
Confidence            77666552 33332 2   34455677889987777788888874 222333333333345556776666777665544 


Q ss_pred             hCCCCchhHHHHHHHHHHhcCCH-HHHHHHHHhCCCCCChhHHHHHH
Q 044352          415 YGVKISKEHYACVVDMLCRSGRM-VEAYDLLRQVPMYVTNSMAGAFR  460 (544)
Q Consensus       415 ~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~l~  460 (544)
                       ...|....-..+.-+....|.. .+|.+.+..+...++..+-...+
T Consensus       623 -~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~Vrq~Ai  668 (963)
T 4ady_A          623 -SHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQAAM  668 (963)
T ss_dssp             -CSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHHHHHHH
T ss_pred             -cCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHHHHHHH
Confidence             2234444344444444445543 67888888886566655443333

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=94.81  E-value=0.055  Score=42.23  Aligned_cols=27  Identities=7%  Similarity=-0.104  Sum_probs=21.8

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044352          488 DGFVMLSNICAADGEWHEAENLRKIMK  514 (544)
Q Consensus       488 ~~~~~l~~~~~~~g~~~~A~~~~~~~~  514 (544)
                      +.-..++.+|.+.|++++|+.+++.+.
T Consensus       123 Elkykia~C~~~l~~~~~Ai~~Le~Ip  149 (167)
T 3ffl_A          123 EVKYKLAECYTVLKQDKDAIAILDGIP  149 (167)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHCCHHHHHHHHhcCC
Confidence            566778888999999999999887654

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=94.52  E-value=4.1  Score=40.24  Aligned_cols=240  Identities=8%  Similarity=-0.099  Sum_probs=115.6

Q ss_pred             HHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCC
Q 044352           49 LKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLD  128 (544)
Q Consensus        49 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~  128 (544)
                      .-......+.+.+++...+..+.. ++.+...-.....+....|+..+|....+.+-..|. ..+.....++..+.+.|.
T Consensus        74 Lr~~~l~~l~~~~~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~-~~p~~c~~l~~~~~~~g~  151 (618)
T 1qsa_A           74 LQSRFVNELARREDWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-SQPNACDKLFSVWRASGK  151 (618)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-CCCTHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhCCCHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCC-CCcHHHHHHHHHHHHCCC
Confidence            455566667777888888886666 444554444556666777877777766666654432 233344444444443333


Q ss_pred             hHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhcc---------------------------CCChh-
Q 044352          129 IKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMF---------------------------ERDVV-  180 (544)
Q Consensus       129 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~---------------------------~~~~~-  180 (544)
                      +....                ++ .-+......|+...|..+...+.                           .++.. 
T Consensus       152 lt~~~----------------~~-~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~~p~~~~~~~~~~~~~~~~  214 (618)
T 1qsa_A          152 QDPLA----------------YL-ERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTVLTFARTTGATDFT  214 (618)
T ss_dssp             SCHHH----------------HH-HHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGHHHHHHHSCCCHHH
T ss_pred             CCHHH----------------HH-HHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHhChHhHHHHHhccCCChhh
Confidence            22111                11 11122222333333333322221                           11111 


Q ss_pred             --hHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHH----HHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHH
Q 044352          181 --SWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAI----IASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNA  254 (544)
Q Consensus       181 --~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  254 (544)
                        .+...+.-+.+ .+.+.|...+....... ..+......+    .......+...++...+......  ..+.....-
T Consensus       215 ~~~~~~~~~rlar-~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~e~  290 (618)
T 1qsa_A          215 RQMAAVAFASVAR-QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR--SQSTSLIER  290 (618)
T ss_dssp             HHHHHHHHHHHHH-HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT--CCCHHHHHH
T ss_pred             HHHHHHHHHHHHh-cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc--CCChHHHHH
Confidence              11111222222 36677777776665433 2222222222    22222233244555555554433  233333333


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHH
Q 044352          255 MISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCR  312 (544)
Q Consensus       255 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  312 (544)
                      .+....+.|+++.|...|..|.... .........+.++....|+.++|..+|..+.+
T Consensus       291 ~~r~Alr~~d~~~a~~~~~~l~~~~-~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          291 RVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHccccc-cccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            4444455677777777777665321 12333445556666667777777777777654

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.42  E-value=0.93  Score=34.31  Aligned_cols=68  Identities=15%  Similarity=0.132  Sum_probs=49.9

Q ss_pred             CCChhHHHHHHHHHhhcC---ChHHHHHHHHHHHHcCCC-CchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          450 YVTNSMAGAFRNGCNIHG---RRDLAVTMGEEFFEMGLR-KPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       450 ~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .++..+-..+++++.+..   +..+++.+++..+..+|. ..+.+..|+..+.+.|++++|+++.+.+++..
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~e  107 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  107 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            567777777777777665   445778888888877773 44567777888888888888888888887654

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=94.35  E-value=1.7  Score=46.85  Aligned_cols=82  Identities=7%  Similarity=0.018  Sum_probs=50.9

Q ss_pred             HHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCCh----hHHHHHHHHHHhCCCHHHHHHHHhhccCCC--hhhHHHHHH
Q 044352          114 FTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDV----SVGNALIDMYSKCGLLCSARRVFHGMFERD--VVSWTSMIS  187 (544)
Q Consensus       114 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~l~~  187 (544)
                      .-|..++..+.+.+.++.+.+.-....+..-+.+.    ..|..+...+...|++++|...+-.++...  ......++.
T Consensus       900 ~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r~~cLr~LV~  979 (1139)
T 4fhn_B          900 CYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLKKSCLLDFVN  979 (1139)
T ss_dssp             HHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            45677777777777777777777666654322222    256677777888888888877776654322  334555555


Q ss_pred             HHhccCCh
Q 044352          188 GYCNVSKV  195 (544)
Q Consensus       188 ~~~~~~~~  195 (544)
                      .+|..|..
T Consensus       980 ~lce~~~~  987 (1139)
T 4fhn_B          980 QLTKQGKI  987 (1139)
T ss_dssp             HHHHHCCH
T ss_pred             HHHhCCCh
Confidence            55555443

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=94.13  E-value=0.14  Score=47.64  Aligned_cols=65  Identities=12%  Similarity=0.004  Sum_probs=43.1

Q ss_pred             HHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh-----cCCCCCC
Q 044352          458 AFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKE-----KNVQKQP  522 (544)
Q Consensus       458 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~  522 (544)
                      .++..+...|++++|+..++.++..+|-+...+..++.+|.+.|+..+|++.|+++.+     .|++|.|
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~  245 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  245 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCH
Confidence            3444556667777777777777777777777777777777777777777777666543     3555544

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=93.91  E-value=0.5  Score=35.25  Aligned_cols=67  Identities=15%  Similarity=0.129  Sum_probs=40.7

Q ss_pred             CCChhHHHHHHHHHhhcC---ChHHHHHHHHHHHHcCCC-CchhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          450 YVTNSMAGAFRNGCNIHG---RRDLAVTMGEEFFEMGLR-KPDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       450 ~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      .|++.+-..+++++.+..   +..+++.+++..++.+|. ....+..|+-++.+.|++++|+++.+.+++.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            445555556666665554   334566666666666652 3455666666677777777777766666654

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.19  E-value=7.9  Score=36.53  Aligned_cols=96  Identities=13%  Similarity=0.084  Sum_probs=63.5

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHc--CCCCC---HhhHHHHHHHHHhcCChHHHHHHHHHhhh----CCCCCC--Hh
Q 044352          182 WTSMISGYCNVSKVDEAVVLFERMKLE--GLEPN---QFTYNAIIASYARRGDSNAAFAFFSRMTA----EGFVPD--LV  250 (544)
Q Consensus       182 ~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~--~~  250 (544)
                      ...|...+...|++.+|.+++..+...  |....   ...+...++.|...+++.+|..++.++..    ....|+  ..
T Consensus       140 ~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~  219 (445)
T 4b4t_P          140 TKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLE  219 (445)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHH
Confidence            345677788888888888888887533  21111   23455667788888888888888877632    211222  23


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 044352          251 TWNAMISGFAQSKRENEALKLFKGMLV  277 (544)
Q Consensus       251 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  277 (544)
                      .+...+..+...+++.+|...|.++..
T Consensus       220 ~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          220 YYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            456666777778888888888777754

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=91.26  E-value=2.2  Score=43.02  Aligned_cols=54  Identities=15%  Similarity=0.058  Sum_probs=37.3

Q ss_pred             HHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC
Q 044352          393 SACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP  448 (544)
Q Consensus       393 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  448 (544)
                      ..|...|+++.|+.+-++....  .|.+-.+|..|..+|...|+++.|+-.++.+|
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            3455677777777777777652  34456777777777777777777777777664

>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=90.94  E-value=1.2  Score=31.23  Aligned_cols=63  Identities=16%  Similarity=0.198  Sum_probs=49.5

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 044352          365 MVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVD  429 (544)
Q Consensus       365 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  429 (544)
                      +.-+..+-++.+....+.|++.+..+.+.+|.+.+++..|.++++.++.+.+  +...+|..++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~--~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CchhhHHHHHH
Confidence            3446777777777778899999999999999999999999999999987633  33456766654

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=90.83  E-value=3  Score=29.04  Aligned_cols=99  Identities=10%  Similarity=-0.118  Sum_probs=70.8

Q ss_pred             HHHHHHHhhccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHH
Q 044352           16 LDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQ   95 (544)
Q Consensus        16 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   95 (544)
                      +..++.+-.-....++|..+.+.+...+.... +....+..+...|++++|..+.+....||...|-.+..  .+.|--+
T Consensus         9 LAE~AL~gTG~H~HqEA~tIAdwL~~~~~~E~-v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s   85 (115)
T 2uwj_G            9 LAELALAGSGQHCHEEALCIAEWLERLGQDEA-ARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGA   85 (115)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHH
T ss_pred             HHHHHHHHccchHHHHHHHHHHHHHhCCcHHH-HHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHH
Confidence            33444444455578889888888777743444 55555667788999999999999999999998887765  5678888


Q ss_pred             HHHHHHHHHHhcccccCHHHHHH
Q 044352           96 EAIGYFSLMREFIYRCNKFTFSI  118 (544)
Q Consensus        96 ~A~~~~~~~~~~~~~p~~~~~~~  118 (544)
                      ++...+.++...| .|....|..
T Consensus        86 ~le~rL~~la~sg-~p~~q~Fa~  107 (115)
T 2uwj_G           86 ALDRRLAGLGGSS-DPALADFAA  107 (115)
T ss_dssp             HHHHHHHHHHTCS-SHHHHHHHH
T ss_pred             HHHHHHHHHHhCC-CHHHHHHHH
Confidence            8888887777665 345445543

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=90.72  E-value=10  Score=34.92  Aligned_cols=58  Identities=9%  Similarity=-0.030  Sum_probs=27.7

Q ss_pred             HHHHHHhcCCchHHHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHhcCCHHHHHHHHHhC
Q 044352          390 SVLSACSHGGLVEKGLEIFRSMKERYGVKIS----KEHYACVVDMLCRSGRMVEAYDLLRQV  447 (544)
Q Consensus       390 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~  447 (544)
                      .++..|...|++.+|.+++..+.+...-..+    .+++..-+..|...|++.++...+...
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a  165 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSA  165 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            3455555556666665555555543221111    122333344455555655555555443

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=90.62  E-value=3.2  Score=28.96  Aligned_cols=99  Identities=11%  Similarity=-0.078  Sum_probs=70.6

Q ss_pred             HHHHHHHhhccchhhhhhHHhHHHhhcccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHH
Q 044352           16 LDCLLGKCMKSKALRQGKQVHALLCTNDLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQ   95 (544)
Q Consensus        16 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   95 (544)
                      +..++.+-.-....++|..+.+.+...+.... +....+..+...|++++|..+.+....||...|-.+..  .+.|--+
T Consensus        10 LAE~AL~gTG~H~HqEA~tIAdwL~~~~~~E~-v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s   86 (116)
T 2p58_C           10 LAEIALIGTGNHYHEEANCIAEWLHLKGEEEA-VQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGS   86 (116)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHH
T ss_pred             HHHHHHHHccchHHHHHHHHHHHHHhCCcHHH-HHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHH
Confidence            44444444555678889888888777743444 55555667788999999999999999999998887765  4677778


Q ss_pred             HHHHHHHHHHhcccccCHHHHHH
Q 044352           96 EAIGYFSLMREFIYRCNKFTFSI  118 (544)
Q Consensus        96 ~A~~~~~~~~~~~~~p~~~~~~~  118 (544)
                      ++...+.++...| .|....|..
T Consensus        87 ~le~rL~~la~sg-~p~~q~Fa~  108 (116)
T 2p58_C           87 ALESRLNRLARSQ-DPRIQTFVN  108 (116)
T ss_dssp             HHHHHHHHHTTCC-CHHHHHHHH
T ss_pred             HHHHHHHHHHhCC-CHHHHHHHH
Confidence            8888777777654 344444443

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=90.14  E-value=3.7  Score=35.08  Aligned_cols=120  Identities=11%  Similarity=0.013  Sum_probs=71.7

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchh----HHHHHHHHHHhc
Q 044352          359 CYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKE----HYACVVDMLCRS  434 (544)
Q Consensus       359 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~  434 (544)
                      ...+.|+.++|++....-++.. +-|...-..++..+|-.|+++.|.+-++...+.   .|+..    .|..++.+-   
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l---~p~~~~~a~~yr~lI~aE---   78 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAA---   78 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHH---
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---CchhhHHHHHHHHHHHHH---
Confidence            4566788888888888777762 557777777888888888888888888877654   34432    333333221   


Q ss_pred             CCHHHHH-HHHHh--CC-CCCChhHH-HHHHHH--HhhcCChHHHHHHHHHHHHcCCCCchh
Q 044352          435 GRMVEAY-DLLRQ--VP-MYVTNSMA-GAFRNG--CNIHGRRDLAVTMGEEFFEMGLRKPDG  489 (544)
Q Consensus       435 g~~~~A~-~~~~~--~~-~~~~~~~~-~~l~~~--~~~~g~~~~A~~~~~~~~~~~p~~~~~  489 (544)
                          ... ++|.-  .+ ....+..| ..++.+  ....|+.++|..+-.++.+.-|..+..
T Consensus        79 ----~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~ap~~~G~  136 (273)
T 1zbp_A           79 ----QARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFL  136 (273)
T ss_dssp             ----HHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEE
T ss_pred             ----HHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCcccCCC
Confidence                111 22221  11 11112223 233333  335688888888888888877765543

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=89.79  E-value=10  Score=33.52  Aligned_cols=83  Identities=10%  Similarity=-0.028  Sum_probs=51.9

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhc---CChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044352          317 IDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKH---GMVDSSIELFERMLEEGMRANEVTLISVLS  393 (544)
Q Consensus       317 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  393 (544)
                      -++.....+...|.+.|++.+|...|-.....++..+..++.-+...   |...++--++              ... +-
T Consensus       132 Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~~~e~dlf~--------------~Ra-VL  196 (312)
T 2wpv_A          132 GDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIEDSTVAEFF--------------SRL-VF  196 (312)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCCHHHHHHHH--------------HHH-HH
T ss_pred             CCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCCcchHHHHH--------------HHH-HH
Confidence            37788889999999999999999988744333555555544444333   3333221111              111 22


Q ss_pred             HHhcCCchHHHHHHHHHHHHH
Q 044352          394 ACSHGGLVEKGLEIFRSMKER  414 (544)
Q Consensus       394 ~~~~~~~~~~a~~~~~~~~~~  414 (544)
                      -|.-.|+...|..+++...+.
T Consensus       197 ~yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          197 NYLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             HHHHTTBHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHH
Confidence            345678899999988877654

>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=89.25  E-value=4  Score=37.71  Aligned_cols=71  Identities=15%  Similarity=0.102  Sum_probs=52.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHH----HhCCCCchhHH
Q 044352          353 WNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKE----RYGVKISKEHY  424 (544)
Q Consensus       353 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~  424 (544)
                      ...++..+...|++.+++..+..+... .+.+...+..++.++...|+..+|++.|+.+.+    ..|+.|+..+-
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            344566677788888888888887775 355777888888888888888888888877644    34777776654

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.18  E-value=14  Score=39.95  Aligned_cols=186  Identities=11%  Similarity=0.023  Sum_probs=117.6

Q ss_pred             HHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCc--------------------
Q 044352          289 GVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIK--------------------  348 (544)
Q Consensus       289 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------------------  348 (544)
                      .++..+...+..+.+..+...     .+.++.....++.++...|++++|.++|++....                    
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~-----~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGW-----LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHH-----SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHHhhhHHHHHHHhhh-----ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            455556666666666554432     2334555566788899999999999999876420                    


Q ss_pred             ------cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCC
Q 044352          349 ------NVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANE----VTLISVLSACSHGGLVEKGLEIFRSMKERYGVK  418 (544)
Q Consensus       349 ------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  418 (544)
                            -..-|..++..+.+.|.++.+.++-+..++.....+.    ..|..+...+...|++++|...+-.+...   .
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~---~  968 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTT---P  968 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHS---S
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCH---H
Confidence                  0123677788888899999999988888775322222    25677888899999999999888777542   3


Q ss_pred             CchhHHHHHHHHHHhcCCHHHHH------------HHHHh-CC----CCCChhHHHHHHHHHhhcCChHH-HHHHHHHHH
Q 044352          419 ISKEHYACVVDMLCRSGRMVEAY------------DLLRQ-VP----MYVTNSMAGAFRNGCNIHGRRDL-AVTMGEEFF  480 (544)
Q Consensus       419 ~~~~~~~~l~~~~~~~g~~~~A~------------~~~~~-~~----~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~  480 (544)
                      .....+..++..++..|+.+.-.            +++.. +.    ....+..|..|-.-+...|++.+ |..+|+.+.
T Consensus       969 ~r~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~ 1048 (1139)
T 4fhn_B          969 LKKSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLS 1048 (1139)
T ss_dssp             SCHHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHH
Confidence            44667888888777776655433            22221 10    11112233333333445566554 466777776


Q ss_pred             Hc
Q 044352          481 EM  482 (544)
Q Consensus       481 ~~  482 (544)
                      ++
T Consensus      1049 RL 1050 (1139)
T 4fhn_B         1049 RY 1050 (1139)
T ss_dssp             HH
T ss_pred             Hh
Confidence            65

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=89.17  E-value=1.1  Score=38.32  Aligned_cols=55  Identities=16%  Similarity=0.089  Sum_probs=27.9

Q ss_pred             HHhcCCHHHHHHHHHhC-C-CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCC
Q 044352          431 LCRSGRMVEAYDLLRQV-P-MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLR  485 (544)
Q Consensus       431 ~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  485 (544)
                      +.+.|.+++|++....- . .+.|...-..++..++-.|++++|.+-++...+++|.
T Consensus         7 ll~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~   63 (273)
T 1zbp_A            7 ALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE   63 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG
T ss_pred             HHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCch
Confidence            34455555555544432 1 2334444445555555555555555555555555553

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=87.55  E-value=14  Score=32.53  Aligned_cols=127  Identities=8%  Similarity=0.035  Sum_probs=69.3

Q ss_pred             HHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHHHHHH----HHHHHhcccccCHHHHHHHHHHhh
Q 044352           49 LKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGY----FSLMREFIYRCNKFTFSIVLKACV  124 (544)
Q Consensus        49 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~----~~~~~~~~~~p~~~~~~~ll~~~~  124 (544)
                      .+..+..-|.+.+++++|++++..           -...+.+.|+...|-++    .+-..+.+++++......++..+.
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~  103 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIA  103 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            334444455566777777776543           23345566776665554    344445577778777777777665


Q ss_pred             CCCChH-HHHHHHHHH----HHcC--CCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHH
Q 044352          125 GLLDIK-KGKQVHAVA----TQMG--FENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMI  186 (544)
Q Consensus       125 ~~~~~~-~a~~~~~~~----~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~  186 (544)
                      .....+ .=.++.+.+    .+.|  ..-++.....+...|.+.|++.+|+..|-.....|...+..++
T Consensus       104 ~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l  172 (312)
T 2wpv_A          104 ELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLL  172 (312)
T ss_dssp             TCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHH
T ss_pred             HCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHH
Confidence            432111 112222222    2332  1235667777777788888887777766522222344444333

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=86.97  E-value=2.8  Score=31.19  Aligned_cols=63  Identities=16%  Similarity=0.198  Sum_probs=49.4

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 044352          365 MVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVD  429 (544)
Q Consensus       365 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  429 (544)
                      |.-+..+-++.+....+.|++.+....+.+|.+.+++..|.++++-++.+.+  +...+|..++.
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~--~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcC--CchhhHHHHHH
Confidence            3445666777777778899999999999999999999999999999988633  34556766654

>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=86.18  E-value=5.5  Score=27.93  Aligned_cols=49  Identities=14%  Similarity=0.091  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHc
Q 044352           94 FQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQM  142 (544)
Q Consensus        94 ~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  142 (544)
                      .-+...-++.+...++.|++......+++|.+.+++..|.++++-++..
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K   74 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   74 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3345555555555556666666666666666666666666666655544

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=85.54  E-value=7.3  Score=27.15  Aligned_cols=89  Identities=11%  Similarity=0.065  Sum_probs=60.6

Q ss_pred             CCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHH
Q 044352          125 GLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFER  204 (544)
Q Consensus       125 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  204 (544)
                      .....++|..+-+.+...+-  ...+--.-+..+...|++++|..+.+...-||...|.++..  .+.|-.+++...+.+
T Consensus        18 G~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~   93 (115)
T 2uwj_G           18 GQHCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAG   93 (115)
T ss_dssp             TTTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHH
Confidence            34466777777777776642  22222233445677899999999999888888888887765  366777777777777


Q ss_pred             HHHcCCCCCHhhHH
Q 044352          205 MKLEGLEPNQFTYN  218 (544)
Q Consensus       205 ~~~~~~~~~~~~~~  218 (544)
                      +..+| .|....|.
T Consensus        94 la~sg-~p~~q~Fa  106 (115)
T 2uwj_G           94 LGGSS-DPALADFA  106 (115)
T ss_dssp             HHTCS-SHHHHHHH
T ss_pred             HHhCC-CHHHHHHH
Confidence            77666 55554443

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=85.47  E-value=13  Score=30.09  Aligned_cols=44  Identities=9%  Similarity=0.120  Sum_probs=16.1

Q ss_pred             HHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcC
Q 044352           49 LKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTG   92 (544)
Q Consensus        49 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~   92 (544)
                      .....+..+...|..+....+.+.+..++...-...+.++...+
T Consensus        30 vr~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~~L~~~~   73 (201)
T 3ltj_A           30 VRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIG   73 (201)
T ss_dssp             HHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHcCCCHHHHHHHHHHHHhhC
Confidence            33333444444443333333333333333333333333333333

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=85.05  E-value=7.8  Score=27.06  Aligned_cols=89  Identities=12%  Similarity=0.067  Sum_probs=58.2

Q ss_pred             CCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHH
Q 044352          125 GLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFER  204 (544)
Q Consensus       125 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  204 (544)
                      .....++|..+-+.+...+-  ...+--.-+..+...|++++|..+.+...-||...|.++...  +.|-.+++...+.+
T Consensus        19 G~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~   94 (116)
T 2p58_C           19 GNHYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCEY--RLGLGSALESRLNR   94 (116)
T ss_dssp             TTTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHHH--HHTCHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHH
Confidence            34466777777777766542  222222334446778888888888888888888888777653  56777777777767


Q ss_pred             HHHcCCCCCHhhHH
Q 044352          205 MKLEGLEPNQFTYN  218 (544)
Q Consensus       205 ~~~~~~~~~~~~~~  218 (544)
                      +..+| .|....|.
T Consensus        95 la~sg-~p~~q~Fa  107 (116)
T 2p58_C           95 LARSQ-DPRIQTFV  107 (116)
T ss_dssp             HTTCC-CHHHHHHH
T ss_pred             HHhCC-CHHHHHHH
Confidence            66555 45444443

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=84.58  E-value=11  Score=30.59  Aligned_cols=47  Identities=11%  Similarity=-0.200  Sum_probs=25.0

Q ss_pred             HHHHHHHHHhCC----CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcC
Q 044352          437 MVEAYDLLRQVP----MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMG  483 (544)
Q Consensus       437 ~~~A~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  483 (544)
                      ..++.++|.-|-    ...-...|...+..+...|++.+|.++|+..++.+
T Consensus        95 ~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~  145 (202)
T 3esl_A           95 FHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENN  145 (202)
T ss_dssp             HHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             cCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            445555554441    23334445555555556666666666666666544

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.68  E-value=29  Score=32.60  Aligned_cols=97  Identities=11%  Similarity=0.138  Sum_probs=68.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc--CCCCC---HHHHHHHHHHHhcCCchHHHHHHHHHHHHHh-CCCCc----
Q 044352          351 ASWNAMIGCYGKHGMVDSSIELFERMLEE--GMRAN---EVTLISVLSACSHGGLVEKGLEIFRSMKERY-GVKIS----  420 (544)
Q Consensus       351 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~----  420 (544)
                      .....|...+...|++.+|..++..+...  |..+.   ...+...+..|...+++..|..++.++.... ...+.    
T Consensus       138 rl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk  217 (445)
T 4b4t_P          138 RVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLK  217 (445)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHH
Confidence            34566788888899999999999988653  22221   2356667778889999999999998875421 12222    


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhC
Q 044352          421 KEHYACVVDMLCRSGRMVEAYDLLRQV  447 (544)
Q Consensus       421 ~~~~~~l~~~~~~~g~~~~A~~~~~~~  447 (544)
                      ...+...+..+...+++.+|...|.++
T Consensus       218 ~~~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          218 LEYYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            234566677788889999998877665

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=83.53  E-value=17  Score=29.73  Aligned_cols=49  Identities=8%  Similarity=0.132  Sum_probs=22.7

Q ss_pred             cchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCC
Q 044352           44 LNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGN   93 (544)
Q Consensus        44 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~   93 (544)
                      ++.. .....+..+.+.|+.+..-.+.+.+..++...-...+.++...++
T Consensus        31 ~~~~-vR~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~   79 (211)
T 3ltm_A           31 DSYY-VRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGD   79 (211)
T ss_dssp             SSHH-HHHHHHHHHHHHCCGGGHHHHHHHTTCSCHHHHHHHHHHHHHHCC
T ss_pred             CCHH-HHHHHHHHHHHhCCccHHHHHHHHHcCCCHHHHHHHHHHHHhhCC
Confidence            4444 445555555555553333333343444444444444444444443

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=81.78  E-value=20  Score=29.29  Aligned_cols=119  Identities=11%  Similarity=0.037  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCC
Q 044352          150 VGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGD  229 (544)
Q Consensus       150 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  229 (544)
                      +....+.++...++.+....+.+.+..++...-...+.++...++.+. ...+..+..   .++...-...+.++.+.++
T Consensus        66 vr~~a~~aL~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~~-~~~L~~~l~---d~~~~vr~~a~~aL~~~~~  141 (211)
T 3ltm_A           66 VRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSAAVALGQIGDERA-VEPLIKALK---DEDWFVRIAAAFALGEIGD  141 (211)
T ss_dssp             HHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGG-HHHHHHHTT---CSSHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCcHHH-HHHHHHHHh---CCCHHHHHHHHHHHHHcCC
Confidence            333333344444433333333333333444444444444444444322 222222221   3444444444444444444


Q ss_pred             hHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 044352          230 SNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLV  277 (544)
Q Consensus       230 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  277 (544)
                      .+ +...+..+.+   .++..+-...+.++.+.+. ..+...+..+.+
T Consensus       142 ~~-~~~~L~~~l~---d~~~~vr~~a~~aL~~~~~-~~~~~~L~~~l~  184 (211)
T 3ltm_A          142 ER-AVEPLIKALK---DEDGWVRQSAADALGEIGG-ERVRAAMEKLAE  184 (211)
T ss_dssp             GG-GHHHHHHHTT---CSSHHHHHHHHHHHHHHCS-HHHHHHHHHHHH
T ss_pred             HH-HHHHHHHHHc---CCCHHHHHHHHHHHHHhCc-hhHHHHHHHHHh
Confidence            32 2233333322   3444444445555555544 344444555443

---

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	544
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.95
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.95
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.73
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.7
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.39
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.36
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.33
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.31
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.28
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.28
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.26
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.22
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.2
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.17
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.04
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	99.04
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.03
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.98
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.92
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.91
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.89
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.87
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.86
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.8
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.8
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.79
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.77
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.68
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.67
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.65
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.64
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.62
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.58
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.57
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.56
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.55
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.51
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.51
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.5
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.46
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.37
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.28
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.28
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.27
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.27
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.17
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.17
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.16
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	98.12
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.08
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.92
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.92
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.85
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.78
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	97.54
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	97.27
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.15
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	97.04
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.87
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.69
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.67
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.21
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	90.32
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	83.45

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1.5e-24  Score=204.55  Aligned_cols=376  Identities=11%  Similarity=0.080  Sum_probs=241.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCC
Q 044352           84 MVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGL  163 (544)
Q Consensus        84 l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  163 (544)
                      +...+.+.|++++|++.++++.+.. +-+...+..+...+...|++++|...++.+.+.. |.+..++..+..+|...|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            3445566777777777777776642 1234556666666666777777777777666654 4445556666666666666


Q ss_pred             HHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHh
Q 044352          164 LCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRM  240 (544)
Q Consensus       164 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  240 (544)
                      +++|...+.....   .+...+..........+....+........... .................+....+...+...
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHh
Confidence            6666665555533   122223333333333334444433333333222 122222222333333444444444444443


Q ss_pred             hhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHH
Q 044352          241 TAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVF  320 (544)
Q Consensus       241 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  320 (544)
                      .... +.+...+..+...+...|++++|...+.                                   ...+.. +.+..
T Consensus       162 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~-----------------------------------~al~~~-p~~~~  204 (388)
T d1w3ba_         162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFE-----------------------------------KAVTLD-PNFLD  204 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHH-----------------------------------HHHHHC-TTCHH
T ss_pred             hccC-cchhHHHHhhcccccccCcHHHHHHHHH-----------------------------------HHHHhC-cccHH
Confidence            3321 2233344444444444444444444444                                   444433 22445


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcC---CccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 044352          321 TGSALIDMYSKCGSLKDARTLFEITR---IKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSH  397 (544)
Q Consensus       321 ~~~~l~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  397 (544)
                      ++..+...+...|++++|...++...   ..+...+..+...+...|++++|+..|++..+.. +.+..++..+..++..
T Consensus       205 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  283 (388)
T d1w3ba_         205 AYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKE  283 (388)
T ss_dssp             HHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            56666666667777777776666544   2345567777788888888888888888888752 4456788888888999


Q ss_pred             CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHH
Q 044352          398 GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTM  475 (544)
Q Consensus       398 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~  475 (544)
                      .|++++|.+.++....  ..+.+...+..++.++...|++++|.+.|+++.  .+.+..++..++.++...|++++|+..
T Consensus       284 ~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~  361 (388)
T d1w3ba_         284 KGSVAEAEDCYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMH  361 (388)
T ss_dssp             HSCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHH
T ss_pred             cCCHHHHHHHHHhhhc--cCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999998877  356677888888999999999999999998864  344567888899999999999999999


Q ss_pred             HHHHHHcCCCCchhHHHHHHHHHhcCC
Q 044352          476 GEEFFEMGLRKPDGFVMLSNICAADGE  502 (544)
Q Consensus       476 ~~~~~~~~p~~~~~~~~l~~~~~~~g~  502 (544)
                      |+++++++|+++.++..+|.+|.+.|+
T Consensus       362 ~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         362 YKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            999999999999999999999998885

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=2.2e-24  Score=203.41  Aligned_cols=372  Identities=12%  Similarity=0.048  Sum_probs=264.2

Q ss_pred             HHHhCCCHHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHH
Q 044352          157 MYSKCGLLCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAA  233 (544)
Q Consensus       157 ~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  233 (544)
                      .+.+.|++++|.+.++++.+   .+...+..+..++.+.|++++|...|++..+.. +-+..++..+...+...|++++|
T Consensus         8 ~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A   86 (388)
T d1w3ba_           8 REYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEA   86 (388)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccccc
Confidence            34444555555555554432   233445555555555555566666665555442 23345556666666666666666


Q ss_pred             HHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHc
Q 044352          234 FAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRM  313 (544)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  313 (544)
                      ...+....+.. +.+...+..........+....+........... .................+....+...+......
T Consensus        87 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (388)
T d1w3ba_          87 IEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIET  164 (388)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred             ccccccccccc-cccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHhhcc
Confidence            66666665543 2333333334444444444444444444444332 233333444444455556666666666665555


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 044352          314 GLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLIS  390 (544)
Q Consensus       314 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  390 (544)
                      . +.+...+..+...+...|+++.|...++....   .+...|..+...+...|++++|...+++..... +.+...+..
T Consensus       165 ~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  242 (388)
T d1w3ba_         165 Q-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGN  242 (388)
T ss_dssp             C-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             C-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHH
Confidence            4 33566777888889999999999999986653   466789999999999999999999999998863 556778888


Q ss_pred             HHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCC
Q 044352          391 VLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGR  468 (544)
Q Consensus       391 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~  468 (544)
                      +...+...|++++|...|+++.+  ..+.+...+..++.++...|++++|.+.++.+.  .+.+...+..++..+...|+
T Consensus       243 l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  320 (388)
T d1w3ba_         243 LACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGN  320 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCC
Confidence            99999999999999999999987  345567889999999999999999999998874  55677888899999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCceEEEecC-eeeccc
Q 044352          469 RDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQKQPGFSRVEKRN-EFVEKE  537 (544)
Q Consensus       469 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~  537 (544)
                      +++|+..|+++++++|+++.++..++.+|.+.|++++|+..|+++++..  |+....|..++. +...||
T Consensus       321 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~--P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         321 IEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS--PTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCC
Confidence            9999999999999999999999999999999999999999999998753  444445555555 555554

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=4.8e-16  Score=141.67  Aligned_cols=244  Identities=11%  Similarity=-0.082  Sum_probs=157.6

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 044352          254 AMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCG  333 (544)
Q Consensus       254 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  333 (544)
                      .....+.+.|++++|+..|+++++.. +-+..++..+..++...|+++.|...+.++.+.. +.+...+..++.+|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            45666777888888888888777653 3345566666666777777777777777666654 234555666666666666


Q ss_pred             CHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Q 044352          334 SLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKE  413 (544)
Q Consensus       334 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  413 (544)
                      ++++|.+.++.....++.....+              .......   ...+.......+..+...+.+.++...+.++.+
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~--------------~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  164 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLV--------------TPAEEGA---GGAGLGPSKRILGSLLSDSLFLEVKELFLAAVR  164 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGC--------------C------------------CTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchHHHH--------------Hhhhhhh---hhcccccchhhHHHHHHhhHHHHHHHHHHHHHH
Confidence            66666666654432110000000              0000000   000000011112223344566777777777766


Q ss_pred             HhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHH
Q 044352          414 RYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFV  491 (544)
Q Consensus       414 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  491 (544)
                      ......+...+..++..+...|++++|...++++.  .+.+..+|..++.++...|++++|+..|+++++++|+++.++.
T Consensus       165 ~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~  244 (323)
T d1fcha_         165 LDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRY  244 (323)
T ss_dssp             HSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHH
Confidence            53334456677788888888888888888888763  4445778888888888999999999999999999998899999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          492 MLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       492 ~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      .+|.+|.+.|++++|++.|+++++.
T Consensus       245 ~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         245 NLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999888764

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=1.8e-15  Score=137.80  Aligned_cols=270  Identities=12%  Similarity=0.011  Sum_probs=202.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccC
Q 044352          219 AIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTG  298 (544)
Q Consensus       219 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  298 (544)
                      .....+.+.|++++|+..|+++.+.. +.+..+|..+..++...|++++|...|.+.++.. +-+...+..+..++...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            46677889999999999999999874 4568899999999999999999999999998764 345678888889999999


Q ss_pred             chHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 044352          299 SIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLE  378 (544)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  378 (544)
                      ++++|...+..+....... ........... ..               .+.......+..+...+.+.+|...+.+...
T Consensus       102 ~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~-~~---------------~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  164 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAY-AHLVTPAEEGA-GG---------------AGLGPSKRILGSLLSDSLFLEVKELFLAAVR  164 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTT-GGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccch-HHHHHhhhhhh-hh---------------cccccchhhHHHHHHhhHHHHHHHHHHHHHH
Confidence            9999999999988764221 11110000000 00               0001111112233445567788888888876


Q ss_pred             cC-CCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhH
Q 044352          379 EG-MRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSM  455 (544)
Q Consensus       379 ~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~  455 (544)
                      .. -.++..++..+...+...|++++|+..+++....  .+.+...|..++.+|...|++++|.+.|+++.  .+.+..+
T Consensus       165 ~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a  242 (323)
T d1fcha_         165 LDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRS  242 (323)
T ss_dssp             HSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHH
Confidence            43 2235677888888999999999999999999874  34567889999999999999999999999874  4456778


Q ss_pred             HHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchh-----------HHHHHHHHHhcCChHHHHHH
Q 044352          456 AGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDG-----------FVMLSNICAADGEWHEAENL  509 (544)
Q Consensus       456 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~-----------~~~l~~~~~~~g~~~~A~~~  509 (544)
                      +..++.+|...|++++|+..|+++++++|+++.+           +..+..++...|+.+.+...
T Consensus       243 ~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~~  307 (323)
T d1fcha_         243 RYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAA  307 (323)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999999999999999999877653           45567777777887766544

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.39  E-value=1.5e-10  Score=106.07  Aligned_cols=263  Identities=11%  Similarity=-0.006  Sum_probs=147.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhCCCCCC------HhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHH
Q 044352          220 IIASYARRGDSNAAFAFFSRMTAEGFVPD------LVTWNAMISGFAQSKRENEALKLFKGMLVSGI-KPNNVTVTGVLQ  292 (544)
Q Consensus       220 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~  292 (544)
                      ....+...|++++|++++++..+.  .|+      ...+..+..++...|++++|...|.+..+... .++...      
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~--~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~------   89 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEE--LPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHY------   89 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHT--CCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHH------
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhh--CcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHH------
Confidence            344556667777777777766554  222      23455556666677777777777766654210 011000      


Q ss_pred             HhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC-------c----cHHHHHHHHHHHH
Q 044352          293 AGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI-------K----NVASWNAMIGCYG  361 (544)
Q Consensus       293 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-------~----~~~~~~~l~~~~~  361 (544)
                                               ....+..+...+...|++..+...+.....       +    ....+..+...+.
T Consensus        90 -------------------------~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~  144 (366)
T d1hz4a_          90 -------------------------ALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLW  144 (366)
T ss_dssp             -------------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHH
T ss_pred             -------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHH
Confidence                                     011223333444445555555444433221       0    1123445556666


Q ss_pred             hcCChHHHHHHHHHHHHcCC----CCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCc-----hhHHHHHHHHHH
Q 044352          362 KHGMVDSSIELFERMLEEGM----RANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKIS-----KEHYACVVDMLC  432 (544)
Q Consensus       362 ~~g~~~~A~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~  432 (544)
                      ..|+++.+...+........    .....++......+...+++..+...+.+..........     ...+...+..+.
T Consensus       145 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  224 (366)
T d1hz4a_         145 AWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQ  224 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH
T ss_pred             HhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHH
Confidence            67777777777766665321    112334444555566667777777766665543222111     223445556667


Q ss_pred             hcCCHHHHHHHHHhCC-CC-----CChhHHHHHHHHHhhcCChHHHHHHHHHHHHc------CCCCchhHHHHHHHHHhc
Q 044352          433 RSGRMVEAYDLLRQVP-MY-----VTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEM------GLRKPDGFVMLSNICAAD  500 (544)
Q Consensus       433 ~~g~~~~A~~~~~~~~-~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~p~~~~~~~~l~~~~~~~  500 (544)
                      ..|++++|...+++.. ..     .....+..++.++...|++++|...+++++..      .|....++..++.+|.+.
T Consensus       225 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  304 (366)
T d1hz4a_         225 MTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQA  304 (366)
T ss_dssp             HTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHC
Confidence            7778888877777653 11     11234455666777788888888888877642      244455677778888888


Q ss_pred             CChHHHHHHHHHHHh
Q 044352          501 GEWHEAENLRKIMKE  515 (544)
Q Consensus       501 g~~~~A~~~~~~~~~  515 (544)
                      |++++|.+.+++.++
T Consensus       305 g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         305 GRKSDAQRVLLDALK  319 (366)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            888888888777765

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.36  E-value=6.4e-12  Score=114.27  Aligned_cols=229  Identities=7%  Similarity=-0.129  Sum_probs=161.6

Q ss_pred             CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhcc--CchHHHHHHHHHHHHcCCCCCHHH-HHHHHHHHHhcCCHHHH
Q 044352          262 SKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLT--GSIQIGREIHALVCRMGLHIDVFT-GSALIDMYSKCGSLKDA  338 (544)
Q Consensus       262 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~A  338 (544)
                      .|++++|+.+++..++.. +-+...+.....++...  ++.+++...+..+.+.... +... +......+...+.++.|
T Consensus        86 ~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          86 AALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHH
Confidence            344667777777777653 33444455444444333  4567777777777776533 3444 34455677778899999


Q ss_pred             HHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHh
Q 044352          339 RTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERY  415 (544)
Q Consensus       339 ~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  415 (544)
                      ...++.+..   .+..+|+.+..++...|++++|...+......  .|+.   ......+...+..+++...+.....  
T Consensus       164 l~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~--  236 (334)
T d1dcea1         164 LAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLL--  236 (334)
T ss_dssp             HHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHH--
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHH--
Confidence            999987775   35678888888899999888887666554442  2211   1222334445666777777777765  


Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCC-ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHH
Q 044352          416 GVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYV-TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVML  493 (544)
Q Consensus       416 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  493 (544)
                      ..+++...+..++..+...|+..+|...+.+.. ..| +..++..++.++...|++++|+.+++++++++|.++..|..|
T Consensus       237 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L  316 (334)
T d1dcea1         237 GRAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL  316 (334)
T ss_dssp             SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             hCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHH
Confidence            445556667777888888999999999998764 333 456788888899999999999999999999999999999999


Q ss_pred             HHHHHh
Q 044352          494 SNICAA  499 (544)
Q Consensus       494 ~~~~~~  499 (544)
                      +..+.-
T Consensus       317 ~~~~~~  322 (334)
T d1dcea1         317 RSKFLL  322 (334)
T ss_dssp             HHHHHH
T ss_pred             HHHHhH
Confidence            887764

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.33  E-value=4.3e-11  Score=107.13  Aligned_cols=226  Identities=7%  Similarity=-0.047  Sum_probs=159.9

Q ss_pred             HHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHhcCC---ccHHHHHHHHHHH
Q 044352          285 VTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCG-SLKDARTLFEITRI---KNVASWNAMIGCY  360 (544)
Q Consensus       285 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~---~~~~~~~~l~~~~  360 (544)
                      ..+..+...+.+.+.+++|...++.+++.. +.+..+|+....++...| ++++|+..++....   .+..+|..+...+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHH
Confidence            345555666777788888888888888876 346677777777777765 47888888876653   4567888888888


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC----
Q 044352          361 GKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGR----  436 (544)
Q Consensus       361 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----  436 (544)
                      ...|++++|++.++++++.. +.+...|..+...+...|++++|++.++++.+.  .+.+...|+.+..++.+.+.    
T Consensus       123 ~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHccccchh
Confidence            88888888888888888852 446778888888888888888888888888774  34456677777777666554    


Q ss_pred             --HHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC--chhHHHHHHHHHhc--CChHHHHH
Q 044352          437 --MVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK--PDGFVMLSNICAAD--GEWHEAEN  508 (544)
Q Consensus       437 --~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~~~~--g~~~~A~~  508 (544)
                        +++|.+.+.++.  .+.+...|..+...+.. ...+++...++.++++.|..  +..+..++.+|...  +..+.+..
T Consensus       200 ~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~  278 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  278 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             hhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHH
Confidence              467777776653  34456667666655443 44677788888888777654  34455666666543  66677777


Q ss_pred             HHHHHHh
Q 044352          509 LRKIMKE  515 (544)
Q Consensus       509 ~~~~~~~  515 (544)
                      .+++..+
T Consensus       279 ~~~ka~~  285 (315)
T d2h6fa1         279 ILNKALE  285 (315)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7777654

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.31  E-value=1.4e-10  Score=103.77  Aligned_cols=211  Identities=8%  Similarity=-0.060  Sum_probs=162.2

Q ss_pred             CCCcchHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCC-ChHHHHHHhccCC---CCCchhHHHH
Q 044352           10 NLSVNYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCG-DVNSARLVFDKIP---NPNVFMLNWM   84 (544)
Q Consensus        10 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~---~~~~~~~~~l   84 (544)
                      |.-..++..+..++.+.+.+++|++.++++++. |.+.. +|+..+.++...| ++++|+..++.+.   |.+..+|+.+
T Consensus        40 p~~~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~-a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~  118 (315)
T d2h6fa1          40 DKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYT-VWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHR  118 (315)
T ss_dssp             HHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChH-HHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence            334567778888888999999999999999999 66666 9999999988876 5899999999876   7778899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCC-
Q 044352           85 VMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGL-  163 (544)
Q Consensus        85 ~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-  163 (544)
                      ...+.+.|++++|+..++++++... -+...|..+...+...|++++|...++.+++.+ +.+...|+.+..++.+.+. 
T Consensus       119 ~~~~~~l~~~~eAl~~~~kal~~dp-~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         119 RVLVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCS
T ss_pred             hHHHHhhccHHHHHHHHhhhhhhhh-cchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHcccc
Confidence            9999999999999999999998532 257789999999999999999999999999986 6677788887777776665 


Q ss_pred             -----HHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCC-CHhhHHHHHHHH
Q 044352          164 -----LCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEP-NQFTYNAIIASY  224 (544)
Q Consensus       164 -----~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~  224 (544)
                           +++|...+....+   .+...|+.+...+. ....+++.+.+....+....+ +...+..++..|
T Consensus       197 ~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y  265 (315)
T d2h6fa1         197 NDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIY  265 (315)
T ss_dssp             CSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             chhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHH
Confidence                 4677777766644   35566766655544 344577777777766543222 233444444444

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.28  E-value=4.2e-11  Score=104.43  Aligned_cols=197  Identities=7%  Similarity=-0.138  Sum_probs=99.8

Q ss_pred             HHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCC
Q 044352          289 GVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGM  365 (544)
Q Consensus       289 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~  365 (544)
                      .+..++...|++++|...|++..+.. +.++.++..+..++.+.|++++|+..|+++..   .+..++..+..++...|+
T Consensus        42 ~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~  120 (259)
T d1xnfa_          42 ERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGR  120 (259)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHHHhh
Confidence            33344444444444444444444443 22455566666666666666666666665542   234456666666677777


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC----HHHHH
Q 044352          366 VDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGR----MVEAY  441 (544)
Q Consensus       366 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----~~~A~  441 (544)
                      +++|...+++.++.. +.+......+..++...+..+.+..+.......   .+....+. ++..+.....    .+.+.
T Consensus       121 ~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~-~~~~~~~~~~~~~~~~~~~  195 (259)
T d1xnfa_         121 DKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS---DKEQWGWN-IVEFYLGNISEQTLMERLK  195 (259)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS---CCCSTHHH-HHHHHTTSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc---chhhhhhh-HHHHHHHHHHHHHHHHHHH
Confidence            777777777776642 223333333333444444444444444443321   12211111 1222211111    11111


Q ss_pred             HHHHhCC-CCC-ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHH
Q 044352          442 DLLRQVP-MYV-TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFV  491 (544)
Q Consensus       442 ~~~~~~~-~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  491 (544)
                      ..+.... ..| ...++..++..+...|++++|+..|+++++.+|++...+.
T Consensus       196 ~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  247 (259)
T d1xnfa_         196 ADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEHR  247 (259)
T ss_dssp             HHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHHH
T ss_pred             HHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence            1111110 111 2345666777888888888888888888888887665544

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.28  E-value=1.4e-09  Score=99.48  Aligned_cols=301  Identities=10%  Similarity=-0.069  Sum_probs=172.5

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHcCCCCC----HhhHHHHHHHHHhcCChHHHHHHHHHhhhCCC-CCC----HhHH
Q 044352          182 WTSMISGYCNVSKVDEAVVLFERMKLEGLEPN----QFTYNAIIASYARRGDSNAAFAFFSRMTAEGF-VPD----LVTW  252 (544)
Q Consensus       182 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~  252 (544)
                      .......+...|++++|..++++..+.....+    ...+..+...+...|++++|...|++..+... .++    ...+
T Consensus        15 ~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          15 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            33445677889999999999999887632211    23566778899999999999999998765310 111    2345


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHc----CCCCC---HHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHH
Q 044352          253 NAMISGFAQSKRENEALKLFKGMLVS----GIKPN---NVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSAL  325 (544)
Q Consensus       253 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  325 (544)
                      ..+...+...|++..+...+.+....    +....   ...+..+...+...|+++.+...+.............     
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----  169 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQ-----  169 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGG-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhh-----
Confidence            66677888899999999998877642    11111   1122333344445555555555555444332111000     


Q ss_pred             HHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCC----CHHHHHHHHHHHhcCC
Q 044352          326 IDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEEG--MRA----NEVTLISVLSACSHGG  399 (544)
Q Consensus       326 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~~  399 (544)
                                            .....+......+...+++..+...+.+.....  ...    ....+......+...|
T Consensus       170 ----------------------~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  227 (366)
T d1hz4a_         170 ----------------------QQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTG  227 (366)
T ss_dssp             ----------------------GGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             ----------------------hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcc
Confidence                                  011233333444445555555555554443310  011    1123344444555666


Q ss_pred             chHHHHHHHHHHHHHhCC--CCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-------CCCC-hhHHHHHHHHHhhcCCh
Q 044352          400 LVEKGLEIFRSMKERYGV--KISKEHYACVVDMLCRSGRMVEAYDLLRQVP-------MYVT-NSMAGAFRNGCNIHGRR  469 (544)
Q Consensus       400 ~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~-~~~~~~l~~~~~~~g~~  469 (544)
                      +++.|...+.........  ......+..++.++...|++++|...++++.       ..|+ ..++..++.+|...|++
T Consensus       228 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  307 (366)
T d1hz4a_         228 DKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRK  307 (366)
T ss_dssp             CHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             cHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCH
Confidence            666666666655432110  1112334455666677777777776666542       1222 34566777788888888


Q ss_pred             HHHHHHHHHHHHcCCC---------CchhHHHHHHHHHhcCChHHHHHH
Q 044352          470 DLAVTMGEEFFEMGLR---------KPDGFVMLSNICAADGEWHEAENL  509 (544)
Q Consensus       470 ~~A~~~~~~~~~~~p~---------~~~~~~~l~~~~~~~g~~~~A~~~  509 (544)
                      ++|.+.+++++++.+.         ....+..+...+...|+.+++..-
T Consensus       308 ~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~~  356 (366)
T d1hz4a_         308 SDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQH  356 (366)
T ss_dssp             HHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHHH
Confidence            8888888888876532         122344556667777888877654

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.26  E-value=5e-11  Score=103.96  Aligned_cols=196  Identities=12%  Similarity=-0.048  Sum_probs=144.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhcCC---ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044352          319 VFTGSALIDMYSKCGSLKDARTLFEITRI---KNVASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSAC  395 (544)
Q Consensus       319 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  395 (544)
                      ..++..+..+|.+.|++++|...|++...   .++.+|+.+..++...|++++|+..|+++++.. +.+..++..+..++
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~  115 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIAL  115 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHH
Confidence            45677788999999999999999997763   577899999999999999999999999999963 44677888899999


Q ss_pred             hcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCCChhHHHHHHHHHh----hcCChH
Q 044352          396 SHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYVTNSMAGAFRNGCN----IHGRRD  470 (544)
Q Consensus       396 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~----~~g~~~  470 (544)
                      ...|++++|...+++..+.  .+.+......+...+.+.+..+.+..+..... ..+....+. +...+.    ..+..+
T Consensus       116 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  192 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWN-IVEFYLGNISEQTLME  192 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHH-HHHHHTTSSCHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhh-HHHHHHHHHHHHHHHH
Confidence            9999999999999999875  24445555555555666665555544443321 112222222 122222    233455


Q ss_pred             HHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 044352          471 LAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNV  518 (544)
Q Consensus       471 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  518 (544)
                      .+...+.......|....++..+|.+|...|++++|+..|++++..+.
T Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         193 RLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             HHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            555555666666677778899999999999999999999999987653

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.22  E-value=2.7e-11  Score=110.10  Aligned_cols=211  Identities=8%  Similarity=-0.060  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHHHhcccccCHHHHHHHHHHhhCC--CChHHHHHHHHHHHHcCCCCChhHHH-HHHHHHHhCCCHHHHHHH
Q 044352           94 FQEAIGYFSLMREFIYRCNKFTFSIVLKACVGL--LDIKKGKQVHAVATQMGFENDVSVGN-ALIDMYSKCGLLCSARRV  170 (544)
Q Consensus        94 ~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~A~~~  170 (544)
                      +++|+..++...+.+ +-+...+..+..++...  +++++|...+..+.+.. +++...+. .....+...+..++|...
T Consensus        89 ~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~  166 (334)
T d1dcea1          89 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAF  166 (334)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHH
Confidence            444555555544421 11223333333333222  23445555555554443 22333322 223344444555555555


Q ss_pred             HhhccC---CChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCC
Q 044352          171 FHGMFE---RDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVP  247 (544)
Q Consensus       171 ~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  247 (544)
                      ++.+..   .+..+|+.+..++...|++++|...+......  .|+.   ......+...+..+++...+....... ++
T Consensus       167 ~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~  240 (334)
T d1dcea1         167 TDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLLGR-AE  240 (334)
T ss_dssp             HHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHHSC-CC
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHHhC-cc
Confidence            555443   22334444455555555554444333322211  1110   111222233344444444444443332 23


Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHc
Q 044352          248 DLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRM  313 (544)
Q Consensus       248 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  313 (544)
                      +...+..++..+...+++++|...+.+..... +.+..++..+..++...|+.++|...++.+.+.
T Consensus       241 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         241 PLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             CSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            33334444444444555555555555544322 122334444555555555555555555555554

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.20  E-value=1.5e-09  Score=96.84  Aligned_cols=164  Identities=11%  Similarity=0.066  Sum_probs=80.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 044352          350 VASWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVD  429 (544)
Q Consensus       350 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  429 (544)
                      ...|...+..+...|+++.|..+|++++.........++...+..+.+.|+++.|.++|+++.+  ..+.+...|...+.
T Consensus        99 ~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~--~~~~~~~~~~~~a~  176 (308)
T d2onda1          99 MLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE--DARTRHHVYVTAAL  176 (308)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHT--STTCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHH--hCCCcHHHHHHHHH
Confidence            3345555555555555555555555555432111123445555555555555555555555543  22223333333332


Q ss_pred             H-HHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch----hHHHHHHHHHhcCC
Q 044352          430 M-LCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD----GFVMLSNICAADGE  502 (544)
Q Consensus       430 ~-~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~----~~~~l~~~~~~~g~  502 (544)
                      . +...|+.+.|..+|+.+.  .+.++..|..++..+...|++++|+.+|+++++..|.++.    .|..++..-...|+
T Consensus       177 ~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~  256 (308)
T d2onda1         177 MEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGD  256 (308)
T ss_dssp             HHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSC
T ss_pred             HHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCC
Confidence            2 222355555555555542  2334455555555555556666666666666555543332    44455555455566


Q ss_pred             hHHHHHHHHHHHh
Q 044352          503 WHEAENLRKIMKE  515 (544)
Q Consensus       503 ~~~A~~~~~~~~~  515 (544)
                      .+.+..+++++.+
T Consensus       257 ~~~~~~~~~r~~~  269 (308)
T d2onda1         257 LASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666555544

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.17  E-value=4.2e-09  Score=93.90  Aligned_cols=187  Identities=10%  Similarity=0.012  Sum_probs=148.6

Q ss_pred             chHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC--c-c-HHHHHHHHHHHHhcCChHHHHHHHH
Q 044352          299 SIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI--K-N-VASWNAMIGCYGKHGMVDSSIELFE  374 (544)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~-~~~~~~l~~~~~~~g~~~~A~~~~~  374 (544)
                      ..+.+..++++..+...+.+...+...+......|+++.|..+|+.+..  + + ..+|...+..+.+.|+.+.|.++|+
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            4577888888888765556677788888888999999999999987653  2 3 3478899999999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHH-HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC----C
Q 044352          375 RMLEEGMRANEVTLISVLSA-CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP----M  449 (544)
Q Consensus       375 ~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~  449 (544)
                      ++++.+ +.+...+...+.. +...|+.+.|..+|+.+.+.  .+.+...|...+..+.+.|+.+.|..+|++..    .
T Consensus       159 ~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         159 KAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            998863 4455555554443 34568999999999999885  45567889999999999999999999999863    2


Q ss_pred             CCC--hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch
Q 044352          450 YVT--NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD  488 (544)
Q Consensus       450 ~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  488 (544)
                      +|.  ...|..++..-...|+.+.+..+++++.+..|....
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~~  276 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEYE  276 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTTS
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccccc
Confidence            322  347888888778899999999999999999886644

>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=99.04  E-value=1.3e-09  Score=81.09  Aligned_cols=90  Identities=9%  Similarity=-0.019  Sum_probs=59.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChH
Q 044352          427 VVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWH  504 (544)
Q Consensus       427 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  504 (544)
                      -+..+.+.|++++|+..|+++.  .+.++..|..++.++...|++++|+..++++++++|+++.+|..++.++...|+++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            3455666666666666666653  44455566666666667777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHhc
Q 044352          505 EAENLRKIMKEK  516 (544)
Q Consensus       505 ~A~~~~~~~~~~  516 (544)
                      +|+..|++.++.
T Consensus        89 ~A~~~~~~a~~~  100 (117)
T d1elwa_          89 EAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            777777666654

>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=99.04  E-value=7.6e-10  Score=92.03  Aligned_cols=111  Identities=8%  Similarity=-0.124  Sum_probs=54.2

Q ss_pred             CCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHH
Q 044352          383 ANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFR  460 (544)
Q Consensus       383 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~  460 (544)
                      |+...+......+.+.|++++|+..|.++.+.  .|.+...|..++.+|.+.|++++|+..|+++.  .+.+..+|..++
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            44444445555555555555555555555442  23344445555555555555555555555442  122344455555


Q ss_pred             HHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHH
Q 044352          461 NGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSN  495 (544)
Q Consensus       461 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  495 (544)
                      .+|...|++++|+..|+++++++|++...+...+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~  114 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIP  114 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            55555555555555555555555444433333333

>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=99.03  E-value=2.2e-09  Score=79.76  Aligned_cols=106  Identities=13%  Similarity=-0.009  Sum_probs=92.0

Q ss_pred             HHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCC
Q 044352          391 VLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGR  468 (544)
Q Consensus       391 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~  468 (544)
                      -...+...|++++|+..|.++.+.  .|.+...|..++.+|...|++++|+..++++.  .+.++..|..++.++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccC
Confidence            455677889999999999998874  46667788999999999999999999998874  56678899999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          469 RDLAVTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       469 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      +++|+..|+++++++|+++.++..+..+-.
T Consensus        87 ~~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             HHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHhC
Confidence            999999999999999999999998887654

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.98  E-value=8.4e-10  Score=81.34  Aligned_cols=91  Identities=8%  Similarity=-0.138  Sum_probs=82.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcC
Q 044352          424 YACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG  501 (544)
Q Consensus       424 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  501 (544)
                      ....+..+.+.|++++|...|+++.  .+.++.+|..++.++.+.|++++|+..++++++++|.++.++..++.+|...|
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCC
Confidence            4456778889999999999999874  44568899999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHH
Q 044352          502 EWHEAENLRKIMK  514 (544)
Q Consensus       502 ~~~~A~~~~~~~~  514 (544)
                      ++++|++.+++.+
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999999864

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.92  E-value=1.6e-08  Score=82.56  Aligned_cols=128  Identities=9%  Similarity=-0.068  Sum_probs=94.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDML  431 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  431 (544)
                      .|+. ...+...|+++.|++.|.++    .+|+..++..+..++...|++++|++.|++..+.  -+.+...|..++.+|
T Consensus         8 l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~   80 (192)
T d1hh8a_           8 LWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLY   80 (192)
T ss_dssp             HHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHH
Confidence            3443 55667788888888888753    3567778888888888888888888888888874  345577888888888


Q ss_pred             HhcCCHHHHHHHHHhCC--CCCC----------------hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC
Q 044352          432 CRSGRMVEAYDLLRQVP--MYVT----------------NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK  486 (544)
Q Consensus       432 ~~~g~~~~A~~~~~~~~--~~~~----------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  486 (544)
                      .+.|++++|.+.|++..  .+.+                ..++..++.++...|++++|.+.+++++++.|..
T Consensus        81 ~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          81 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HhhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            88888888888887652  1110                2345667777888888888888888888888753

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.91  E-value=1.2e-08  Score=80.73  Aligned_cols=118  Identities=8%  Similarity=-0.115  Sum_probs=97.5

Q ss_pred             HHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcC
Q 044352          390 SVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHG  467 (544)
Q Consensus       390 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g  467 (544)
                      .....|.+.|++++|+..|+++.+.  .+.+...|..++.+|...|++++|.+.|+++.  .+.+..+|..++.++...|
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcC
Confidence            3455677889999999999998875  35567888889999999999999999998874  4556789999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHH--HhcCChHHHHHH
Q 044352          468 RRDLAVTMGEEFFEMGLRKPDGFVMLSNIC--AADGEWHEAENL  509 (544)
Q Consensus       468 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~A~~~  509 (544)
                      ++++|+..++++++++|.++.++..+..+.  ...+.+++|+..
T Consensus        93 ~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          93 KFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999999999999988887664  344557777654

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.89  E-value=8.2e-09  Score=81.68  Aligned_cols=94  Identities=10%  Similarity=-0.027  Sum_probs=86.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcC
Q 044352          424 YACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADG  501 (544)
Q Consensus       424 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  501 (544)
                      +...+..|.+.|++++|...|+++.  .+.+...|..++.++...|++++|+..|+++++++|.++.++..+|.++...|
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcC
Confidence            4445677899999999999999874  56678899999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHhcC
Q 044352          502 EWHEAENLRKIMKEKN  517 (544)
Q Consensus       502 ~~~~A~~~~~~~~~~~  517 (544)
                      ++++|+..++++.+..
T Consensus        93 ~~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          93 KFRAALRDYETVVKVK  108 (159)
T ss_dssp             CHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHcC
Confidence            9999999999999865

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.87  E-value=4.5e-09  Score=87.16  Aligned_cols=97  Identities=9%  Similarity=-0.094  Sum_probs=65.9

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 044352          419 ISKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNI  496 (544)
Q Consensus       419 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  496 (544)
                      |+...+...+..|.+.|++++|+..|+++.  .+.++.+|..++.+|...|++++|+..|+++++++|+++.+|..+|.+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~   81 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHH
Confidence            455556666666777777777777776653  444566666666677777777777777777777777777777777777


Q ss_pred             HHhcCChHHHHHHHHHHHh
Q 044352          497 CAADGEWHEAENLRKIMKE  515 (544)
Q Consensus       497 ~~~~g~~~~A~~~~~~~~~  515 (544)
                      |.+.|++++|+..|+++++
T Consensus        82 ~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          82 QLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            7777777777777776665

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.86  E-value=1.2e-08  Score=83.30  Aligned_cols=89  Identities=8%  Similarity=-0.131  Sum_probs=82.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHH
Q 044352          427 VVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEA  506 (544)
Q Consensus       427 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  506 (544)
                      -+..+...|++++|++.|.++. ++++.+|..++.++...|++++|+..|+++++++|+++.+|..+|.++.+.|++++|
T Consensus        11 ~g~~~~~~~d~~~Al~~~~~i~-~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          11 EGVLAADKKDWKGALDAFSAVQ-DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHH
Confidence            3566788999999999999875 678889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc
Q 044352          507 ENLRKIMKEK  516 (544)
Q Consensus       507 ~~~~~~~~~~  516 (544)
                      +..|++.++.
T Consensus        90 ~~~~~kAl~~   99 (192)
T d1hh8a_          90 IKDLKEALIQ   99 (192)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            9999999864

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.80  E-value=4.5e-08  Score=86.14  Aligned_cols=191  Identities=12%  Similarity=0.000  Sum_probs=127.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCC-----cc----HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CC--CHHHHH
Q 044352          324 ALIDMYSKCGSLKDARTLFEITRI-----KN----VASWNAMIGCYGKHGMVDSSIELFERMLEEGM---RA--NEVTLI  389 (544)
Q Consensus       324 ~l~~~~~~~~~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~--~~~~~~  389 (544)
                      .....|...+++++|.+.|.+...     .+    ..+|..+..+|...|++++|.+.+++......   .+  ...++.
T Consensus        42 ~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  121 (290)
T d1qqea_          42 QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKF  121 (290)
T ss_dssp             HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHH
Confidence            345667778888888888876542     11    24688888889999999999999888765210   11  134556


Q ss_pred             HHHHHHh-cCCchHHHHHHHHHHHHHhC---CCC-chhHHHHHHHHHHhcCCHHHHHHHHHhCC-CC-CC-------hhH
Q 044352          390 SVLSACS-HGGLVEKGLEIFRSMKERYG---VKI-SKEHYACVVDMLCRSGRMVEAYDLLRQVP-MY-VT-------NSM  455 (544)
Q Consensus       390 ~l~~~~~-~~~~~~~a~~~~~~~~~~~~---~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-~~-------~~~  455 (544)
                      .+...|. ..|++++|++.+++..+...   .++ ...++..++..|...|++++|.+.|+++. .. ..       ...
T Consensus       122 ~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~  201 (290)
T d1qqea_         122 ELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDY  201 (290)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHH
T ss_pred             HHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHH
Confidence            6666664 46999999999988765321   111 13457788999999999999999998753 11 11       122


Q ss_pred             HHHHHHHHhhcCChHHHHHHHHHHHHcCCCCch-----hHHHHHHHHHh--cCChHHHHHHHHHHH
Q 044352          456 AGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPD-----GFVMLSNICAA--DGEWHEAENLRKIMK  514 (544)
Q Consensus       456 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-----~~~~l~~~~~~--~g~~~~A~~~~~~~~  514 (544)
                      +...+..+...|+++.|...++++.+++|..+.     .+..++.++..  .+.+++|+..|+++.
T Consensus       202 ~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         202 FLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            344555677889999999999999999875443     34556666654  356888888886544

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.80  E-value=1.6e-06  Score=74.87  Aligned_cols=147  Identities=8%  Similarity=-0.059  Sum_probs=96.4

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh----cCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----c
Q 044352          363 HGMVDSSIELFERMLEEGMRANEVTLISVLSACS----HGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR----S  434 (544)
Q Consensus       363 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  434 (544)
                      .++.+.|...++.....|..   .....+...+.    .......+...+.....    ..+...+..++..|..    .
T Consensus        87 ~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~  159 (265)
T d1ouva_          87 SQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTP  159 (265)
T ss_dssp             CCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSC
T ss_pred             chhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcc
Confidence            34566677777776665421   11112221211    23445666666665544    3455566666666664    4


Q ss_pred             CCHHHHHHHHHhCCCCCChhHHHHHHHHHhh----cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHh----cCChHHH
Q 044352          435 GRMVEAYDLLRQVPMYVTNSMAGAFRNGCNI----HGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAA----DGEWHEA  506 (544)
Q Consensus       435 g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A  506 (544)
                      .+...+...++......+..+...++..|..    ..++++|+.+|+++.+.+  ++.++..|+.+|.+    ..+.++|
T Consensus       160 ~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A  237 (265)
T d1ouva_         160 KDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQA  237 (265)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTH
T ss_pred             cccccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHH
Confidence            4566677777766545567777777766665    568999999999998876  57888899999886    3489999


Q ss_pred             HHHHHHHHhcCC
Q 044352          507 ENLRKIMKEKNV  518 (544)
Q Consensus       507 ~~~~~~~~~~~~  518 (544)
                      .++|++..+.|.
T Consensus       238 ~~~~~kAa~~g~  249 (265)
T d1ouva_         238 IENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHCcC
Confidence            999999987764

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.79  E-value=6.1e-08  Score=77.24  Aligned_cols=134  Identities=7%  Similarity=-0.081  Sum_probs=97.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 044352          352 SWNAMIGCYGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDML  431 (544)
Q Consensus       352 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  431 (544)
                      .+......+.+.|++++|+..|++.+...  |..            .+..+.-......+        ...+|..++.+|
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~--~~~------------~~~~~~~~~~~~~~--------~~~~~~nla~~y   72 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWL--EYE------------SSFSNEEAQKAQAL--------RLASHLNLAMCH   72 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTC------------CCCCSHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHh--hhc------------cccchHHHhhhchh--------HHHHHHHHHHHH
Confidence            44555667777888888888888777631  100            00000111111111        123577788899


Q ss_pred             HhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHH
Q 044352          432 CRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAE  507 (544)
Q Consensus       432 ~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  507 (544)
                      .+.|++++|+..++++.  .+.++.++..++.++...|++++|+..|+++++++|+|+.+...+..+..+.+...+..
T Consensus        73 ~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~e  150 (170)
T d1p5qa1          73 LKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLARE  150 (170)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999998874  45578899999999999999999999999999999999999999999887776666543

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.77  E-value=3.3e-08  Score=73.38  Aligned_cols=108  Identities=14%  Similarity=-0.033  Sum_probs=83.4

Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC---HHHHHHHHHhCC-CCCCh---hHHHHHHH
Q 044352          389 ISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGR---MVEAYDLLRQVP-MYVTN---SMAGAFRN  461 (544)
Q Consensus       389 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~-~~~~~---~~~~~l~~  461 (544)
                      ..++..+...+++++|.+.|++....  -+.+..++..++.++.+.++   +++|+.+++++. ..|++   .++..++.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            34666777788889999999888874  35677888888888876554   456888888864 23332   36788899


Q ss_pred             HHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044352          462 GCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICA  498 (544)
Q Consensus       462 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  498 (544)
                      +|.+.|++++|++.|+++++++|++..+...+..+..
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~~  117 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDK  117 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHHH
Confidence            9999999999999999999999999888776655543

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.68  E-value=1.5e-07  Score=82.64  Aligned_cols=173  Identities=10%  Similarity=0.021  Sum_probs=130.4

Q ss_pred             CHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhcCCchHHHHHHH
Q 044352          334 SLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEE----GMRA-NEVTLISVLSACSHGGLVEKGLEIF  408 (544)
Q Consensus       334 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  408 (544)
                      ++++|.++|.           .....|...|++++|.+.|.++.+.    +-++ -..+|..+..+|.+.|++++|.+.+
T Consensus        32 ~~~~Aa~~y~-----------~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~  100 (290)
T d1qqea_          32 KFEEAADLCV-----------QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (290)
T ss_dssp             HHHHHHHHHH-----------HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHH-----------HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence            4566666544           4577889999999999999998763    1111 2357888899999999999999999


Q ss_pred             HHHHHHhCCCCc----hhHHHHHHHHHHh-cCCHHHHHHHHHhCC----CCCC----hhHHHHHHHHHhhcCChHHHHHH
Q 044352          409 RSMKERYGVKIS----KEHYACVVDMLCR-SGRMVEAYDLLRQVP----MYVT----NSMAGAFRNGCNIHGRRDLAVTM  475 (544)
Q Consensus       409 ~~~~~~~~~~~~----~~~~~~l~~~~~~-~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~g~~~~A~~~  475 (544)
                      ++..+.+.-..+    ..++..++..|.. .|++++|.+.++++.    ...+    ..++..++..+...|++++|+..
T Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~  180 (290)
T d1qqea_         101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDI  180 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHH
Confidence            987664221222    4456677777754 699999999998763    1111    33577788899999999999999


Q ss_pred             HHHHHHcCCCCch-------hHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          476 GEEFFEMGLRKPD-------GFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       476 ~~~~~~~~p~~~~-------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      |+++....|.++.       .+...+.++...|+++.|...++++.+..
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            9999998877653       35667778889999999999999887654

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.67  E-value=3.1e-07  Score=72.97  Aligned_cols=94  Identities=7%  Similarity=-0.087  Sum_probs=78.8

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHh
Q 044352          422 EHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAA  499 (544)
Q Consensus       422 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  499 (544)
                      .+|..+..+|.+.|++++|+..++++.  .+.+..++..++.++...|++++|+..|+++++++|+++.+...+..+..+
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~  144 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKK  144 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            356778889999999999999999874  566788999999999999999999999999999999999999999988877


Q ss_pred             cCChHH-HHHHHHHHHh
Q 044352          500 DGEWHE-AENLRKIMKE  515 (544)
Q Consensus       500 ~g~~~~-A~~~~~~~~~  515 (544)
                      .+...+ ..+.+.+|.+
T Consensus       145 ~~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         145 AKEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHh
Confidence            765554 4455655554

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.65  E-value=6.2e-08  Score=73.03  Aligned_cols=94  Identities=7%  Similarity=0.018  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchh-------HHHH
Q 044352          423 HYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDG-------FVML  493 (544)
Q Consensus       423 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~-------~~~l  493 (544)
                      .+..++..+.+.|++++|++.|+++.  .+.+..++..++.+|...|++++|+..++++++++|+++..       +..+
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            34567888889999999999998874  45567888999999999999999999999999999887764       4556


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhc
Q 044352          494 SNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       494 ~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                      +.++...+++++|++.|++.+..
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            66778888999999999988754

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.64  E-value=1.3e-07  Score=75.35  Aligned_cols=64  Identities=8%  Similarity=-0.076  Sum_probs=59.8

Q ss_pred             hHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          454 SMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       454 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .++..++.+|.+.|++++|+..++++++++|.++.++..+|.+|...|++++|+..|+++++.+
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            3566788899999999999999999999999999999999999999999999999999998865

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.62  E-value=4.1e-08  Score=72.84  Aligned_cols=93  Identities=12%  Similarity=0.033  Sum_probs=80.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcC---ChHHHHHHHHHHHHcCCCC--chhHHHHHHHH
Q 044352          425 ACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHG---RRDLAVTMGEEFFEMGLRK--PDGFVMLSNIC  497 (544)
Q Consensus       425 ~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~  497 (544)
                      ..++..+...+++++|.+.|+++.  .+.++.++..++.++.+.+   ++++|+.+++++++.+|.+  +.++..+|.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            467788889999999999999875  5677889999999998654   5667999999999998754  34889999999


Q ss_pred             HhcCChHHHHHHHHHHHhcC
Q 044352          498 AADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       498 ~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .+.|++++|+++|+++++..
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhHHHHHHHHHHHHhC
Confidence            99999999999999999865

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.58  E-value=3e-07  Score=71.61  Aligned_cols=78  Identities=8%  Similarity=-0.177  Sum_probs=56.7

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHh
Q 044352          422 EHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAA  499 (544)
Q Consensus       422 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  499 (544)
                      .++..++.+|.+.|++++|++.++++.  .+.+..+|..++.++...|++++|+..|+++++++|.|+.+...+..+..+
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~k  147 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  147 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            356667777777888888877777753  445567777777788888888888888888888888777777766655443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.57  E-value=7.2e-09  Score=98.76  Aligned_cols=96  Identities=4%  Similarity=-0.072  Sum_probs=45.2

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHh
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAA  499 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  499 (544)
                      +...+..++..+.+.|+.++|...+..........++..++..+...|++++|+.+|+++++++|+++.+|..||.++..
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~  198 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSCSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASS  198 (497)
T ss_dssp             ------------------------CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            34455556666666666666665554432111123555566666666777777777777777777777777777777777


Q ss_pred             cCChHHHHHHHHHHHh
Q 044352          500 DGEWHEAENLRKIMKE  515 (544)
Q Consensus       500 ~g~~~~A~~~~~~~~~  515 (544)
                      .|+..+|+..|.+.+.
T Consensus       199 ~~~~~~A~~~y~ral~  214 (497)
T d1ya0a1         199 KGDHLTTIFYYCRSIA  214 (497)
T ss_dssp             TTCHHHHHHHHHHHHS
T ss_pred             cCCHHHHHHHHHHHHh
Confidence            7777777776666654

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.56  E-value=6.4e-05  Score=64.34  Aligned_cols=229  Identities=9%  Similarity=-0.017  Sum_probs=120.7

Q ss_pred             HhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHc----CCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 044352          214 QFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQ----SKRENEALKLFKGMLVSGIKPNNVTVTG  289 (544)
Q Consensus       214 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  289 (544)
                      +..+..|...+...+++++|+++|++..+.|   +...+..|...|..    ..++..|...+......+. |  .....
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~-~--~a~~~   75 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY-S--NGCHL   75 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC-H--HHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc-c--chhhc
Confidence            4445556666666677777777777766554   44445555555554    4456666666666554431 1  11111


Q ss_pred             HHHH----hhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCC
Q 044352          290 VLQA----GGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGM  365 (544)
Q Consensus       290 l~~~----~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~  365 (544)
                      +...    .....+.+.+...++...+.|..   .....+...+..                           .......
T Consensus        76 l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~---------------------------~~~~~~~  125 (265)
T d1ouva_          76 LGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHD---------------------------GKVVTRD  125 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHH---------------------------CSSSCCC
T ss_pred             cccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccC---------------------------CCcccch
Confidence            1111    11233444555555544444311   111111111111                           0011233


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----CCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----cCCH
Q 044352          366 VDSSIELFERMLEEGMRANEVTLISVLSACSH----GGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR----SGRM  437 (544)
Q Consensus       366 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~  437 (544)
                      ...+...+......   .+...+..+...+..    ..+...+..+++...+.    .+......++..|..    ..++
T Consensus       126 ~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~----g~~~A~~~lg~~y~~g~~~~~d~  198 (265)
T d1ouva_         126 FKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNF  198 (265)
T ss_dssp             HHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCH
T ss_pred             hHHHHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhccccc----cccccccchhhhcccCcccccch
Confidence            44444555444442   234444444444443    34555666666665542    245555566666554    4578


Q ss_pred             HHHHHHHHhCCCCCChhHHHHHHHHHhh----cCChHHHHHHHHHHHHcCCC
Q 044352          438 VEAYDLLRQVPMYVTNSMAGAFRNGCNI----HGRRDLAVTMGEEFFEMGLR  485 (544)
Q Consensus       438 ~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~  485 (544)
                      ++|...|++.....++.++..|+..|..    ..+.++|.++|+++.+.+..
T Consensus       199 ~~A~~~~~~aa~~g~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         199 KEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             hhhhhhHhhhhcccCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            8888888776544566777777777764    44888999999999888753

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.55  E-value=3e-07  Score=73.18  Aligned_cols=87  Identities=8%  Similarity=-0.152  Sum_probs=67.4

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhCC--CCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044352          420 SKEHYACVVDMLCRSGRMVEAYDLLRQVP--MYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNIC  497 (544)
Q Consensus       420 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  497 (544)
                      ....+..++.+|.+.|++++|+..++++.  .+.+..+|..++.++...|++++|+..|+++++++|+++.+...+..+.
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~  155 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  155 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            34567777888888888888888888763  4456678888888888888899999999999888888888888887776


Q ss_pred             HhcCChHHH
Q 044352          498 AADGEWHEA  506 (544)
Q Consensus       498 ~~~g~~~~A  506 (544)
                      .+.....++
T Consensus       156 ~~l~~~~~~  164 (169)
T d1ihga1         156 QKIKAQKDK  164 (169)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            655444443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.51  E-value=1.8e-07  Score=72.91  Aligned_cols=64  Identities=13%  Similarity=-0.016  Sum_probs=60.1

Q ss_pred             hHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          454 SMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       454 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .++..++.+|.+.|++++|+..++++++++|.+..+|..+|.++...|++++|+..|+++++.+
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            3567788899999999999999999999999999999999999999999999999999998765

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.51  E-value=1.4e-07  Score=69.03  Aligned_cols=91  Identities=9%  Similarity=-0.065  Sum_probs=78.0

Q ss_pred             chHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCchhHHHHHHHHH
Q 044352           14 NYLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVFMLNWMVMASA   89 (544)
Q Consensus        14 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~   89 (544)
                      ......+..+.+.|++++|+..++++++. |.+.. ++..++.++.+.|++++|+..|++..   |.+..+|..+...+.
T Consensus        17 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~-a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~   95 (112)
T d1hxia_          17 ENPMEEGLSMLKLANLAEAALAFEAVCQKEPEREE-AWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHT   95 (112)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHhhhcccccccch-hhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHH
Confidence            34566788888999999999999999998 66677 99999999999999999999998876   667888999999999


Q ss_pred             hcCCHHHHHHHHHHHH
Q 044352           90 FTGNFQEAIGYFSLMR  105 (544)
Q Consensus        90 ~~~~~~~A~~~~~~~~  105 (544)
                      ..|++++|++.+++.+
T Consensus        96 ~~g~~~~A~~~l~~~l  111 (112)
T d1hxia_          96 NEHNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHh
Confidence            9999999999988764

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.50  E-value=2.2e-07  Score=74.04  Aligned_cols=66  Identities=14%  Similarity=-0.094  Sum_probs=61.1

Q ss_pred             ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          452 TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       452 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ....+..++.++.+.|++++|+..++++++++|.++.+|..+|.++.+.|++++|+..|+++++..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            345677788899999999999999999999999999999999999999999999999999999864

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.46  E-value=4e-07  Score=72.24  Aligned_cols=63  Identities=11%  Similarity=-0.052  Sum_probs=58.9

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          455 MAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       455 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      ++..++.+|.+.|++++|+..++++++++|.++.++..++.++...|++++|+..|+++++.+
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            456678889999999999999999999999999999999999999999999999999998754

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.37  E-value=6.3e-07  Score=68.85  Aligned_cols=44  Identities=14%  Similarity=0.066  Sum_probs=34.6

Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 044352          468 RRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNV  518 (544)
Q Consensus       468 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  518 (544)
                      ++++|.+.|+++++++|++..++..|+...       +|.+++.++.+.|+
T Consensus       101 ~~~~A~~~~~kal~l~P~~~~~~~~L~~~~-------ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         101 NFDLATQFFQQAVDEQPDNTHYLKSLEMTA-------KAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-------THHHHHHHHHHSSS
T ss_pred             hHHHhhhhhhcccccCCCHHHHHHHHHHHH-------HHHHHHHHHHHHhc
Confidence            478999999999999999988887776664       66667777666654

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.28  E-value=0.00097  Score=58.04  Aligned_cols=135  Identities=10%  Similarity=0.038  Sum_probs=63.1

Q ss_pred             CChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHH
Q 044352          146 NDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYA  225 (544)
Q Consensus       146 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  225 (544)
                      |+..-...+...|.+.|.++.|..++..+     ..|..++..+.+.++++.|.+.+.+.      -+..+|..+...+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~-----~d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~   80 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACV   80 (336)
T ss_dssp             C----------------CTTTHHHHHHHT-----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhC-----CCHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHH
Confidence            34334445555566666666666666644     33555556666666666666655543      23445555666665


Q ss_pred             hcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhcc
Q 044352          226 RRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLT  297 (544)
Q Consensus       226 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  297 (544)
                      +......+     .+.......++.....++..|-..|.+++...++...... -.++...++.++..+++.
T Consensus        81 ~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          81 DGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTT
T ss_pred             hCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHh
Confidence            55544332     1112222334444455666666666666666666655422 133444555555555554

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.28  E-value=3.2e-06  Score=67.22  Aligned_cols=121  Identities=11%  Similarity=-0.013  Sum_probs=84.0

Q ss_pred             HHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHH-HHHHHHHhCCCCCChhHHHHHHHHHhhcCC
Q 044352          390 SVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMV-EAYDLLRQVPMYVTNSMAGAFRNGCNIHGR  468 (544)
Q Consensus       390 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~-~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~  468 (544)
                      .........|++++|.+.|.+....+.-++-...         ..+.+- ....-++    ......+..++..+...|+
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~---------~~~~w~~~~r~~l~----~~~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREWRGPVLDDL---------RDFQFVEPFATALV----EDKVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGG---------TTSTTHHHHHHHHH----HHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcccccccC---------cchHHHHHHHHHHH----HHHHHHHHHHHHHHHHCCC
Confidence            3344567788888888888887753211110000         000000 0000011    1123466778889999999


Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh-----cCCCCCCC
Q 044352          469 RDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKE-----KNVQKQPG  523 (544)
Q Consensus       469 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~  523 (544)
                      +++|+..++++++.+|.+...|..++.+|.+.|++.+|++.|+++.+     .|+.|.+.
T Consensus        83 ~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~  142 (179)
T d2ff4a2          83 ASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  142 (179)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             chHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHH
Confidence            99999999999999999999999999999999999999999999853     57776653

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.27  E-value=0.001  Score=57.87  Aligned_cols=274  Identities=11%  Similarity=0.085  Sum_probs=131.8

Q ss_pred             ccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHHHhcccccCHHHHHHHHHH
Q 044352           43 DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNFQEAIGYFSLMREFIYRCNKFTFSIVLKA  122 (544)
Q Consensus        43 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~  122 (544)
                      .|+.. -...++..|.+.|.++.|..+|..+..     |..++..+.+.+++..|.+++.+..      +..+|..+...
T Consensus        11 ~~n~~-d~~~i~~~c~~~~lye~A~~lY~~~~d-----~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~   78 (336)
T d1b89a_          11 GPNNA-HIQQVGDRCYDEKMYDAAKLLYNNVSN-----FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFA   78 (336)
T ss_dssp             CC-----------------CTTTHHHHHHHTTC-----HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHH
T ss_pred             CCCcC-CHHHHHHHHHHCCCHHHHHHHHHhCCC-----HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHH
Confidence            34444 455566666677777777777776544     6666777777777777777665442      44566666666


Q ss_pred             hhCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccC---CChhhHHHHHHHHhccCChhHHH
Q 044352          123 CVGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFE---RDVVSWTSMISGYCNVSKVDEAV  199 (544)
Q Consensus       123 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~  199 (544)
                      +.+......+     .+...+...++.....++..|-..|.+++...+++....   .+...++.++..|++.+ .++..
T Consensus        79 l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~  152 (336)
T d1b89a_          79 CVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMR  152 (336)
T ss_dssp             HHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHH
T ss_pred             HHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHH
Confidence            6655544332     112222334555556677777777777777777776532   44556666777666643 33333


Q ss_pred             HHHHHHHHcCCCCCH----------hhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHcCCCHHHHH
Q 044352          200 VLFERMKLEGLEPNQ----------FTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQSKRENEAL  269 (544)
Q Consensus       200 ~~~~~~~~~~~~~~~----------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  269 (544)
                      +.+...   +..-+.          ..|.-++..|.+.|+++.|..++-.   +  .++.......+..+.+..+.+...
T Consensus       153 e~l~~~---s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~---~--~~~~~~~~~f~e~~~k~~N~e~~~  224 (336)
T d1b89a_         153 EHLELF---WSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMN---H--PTDAWKEGQFKDIITKVANVELYY  224 (336)
T ss_dssp             HHHHHH---STTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHH---S--TTTTCCHHHHHHHHHHCSSTHHHH
T ss_pred             HHHHhc---cccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHH---c--chhhhhHHHHHHHHHccCChHHHH
Confidence            333322   111111          1123344444455555554443221   1  233333444555666666666665


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCC-c
Q 044352          270 KLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRI-K  348 (544)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~  348 (544)
                      ++....++.  .|  .....++......-+...                      ++..+.+.+++.....+++.... .
T Consensus       225 ~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r----------------------~V~~~~k~~~l~li~p~Le~v~~~n  278 (336)
T d1b89a_         225 RAIQFYLEF--KP--LLLNDLLMVLSPRLDHTR----------------------AVNYFSKVKQLPLVKPYLRSVQNHN  278 (336)
T ss_dssp             HHHHHHHHH--CG--GGHHHHHHHHGGGCCHHH----------------------HHHHHHHTTCTTTTHHHHHHHHTTC
T ss_pred             HHHHHHHHc--CH--HHHHHHHHHhccCCCHHH----------------------HHHHHHhcCCcHHHHHHHHHHHHcC
Confidence            555555542  23  223333333333333322                      23333344444444444444333 2


Q ss_pred             cHHHHHHHHHHHHhcCChHH
Q 044352          349 NVASWNAMIGCYGKHGMVDS  368 (544)
Q Consensus       349 ~~~~~~~l~~~~~~~g~~~~  368 (544)
                      +....+++...|...++++.
T Consensus       279 ~~~vn~al~~lyie~~d~~~  298 (336)
T d1b89a_         279 NKSVNESLNNLFITEEDYQA  298 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHH
T ss_pred             hHHHHHHHHHHHhCcchhHH
Confidence            33456666666666666543

>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=98.27  E-value=1.7e-06  Score=60.71  Aligned_cols=76  Identities=11%  Similarity=0.031  Sum_probs=57.8

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhCC--------CCC-ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHH
Q 044352          421 KEHYACVVDMLCRSGRMVEAYDLLRQVP--------MYV-TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFV  491 (544)
Q Consensus       421 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  491 (544)
                      ...+..++..+.+.|++++|...|+++.        ..+ ...++..++.++.+.|++++|+..++++++++|+++.++.
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~   84 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANG   84 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHH
Confidence            3445566777777777777777776642        111 2457888999999999999999999999999999999888


Q ss_pred             HHHHH
Q 044352          492 MLSNI  496 (544)
Q Consensus       492 ~l~~~  496 (544)
                      .++..
T Consensus        85 Nl~~~   89 (95)
T d1tjca_          85 NLKYF   89 (95)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87554

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.17  E-value=4.1e-07  Score=86.39  Aligned_cols=222  Identities=9%  Similarity=-0.069  Sum_probs=111.5

Q ss_pred             hhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCch---hHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044352           31 QGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVF---MLNWMVMASAFTGNFQEAIGYFSLMRE  106 (544)
Q Consensus        31 ~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~A~~~~~~~~~  106 (544)
                      +|.+.++++++. |.... ++..++.++...|++++|   |+++...|+.   ..+.. ..+. ...+..+++.++...+
T Consensus         4 eA~q~~~qA~~l~p~~a~-a~~~la~~~~~~~~l~ea---ye~~i~~dp~~a~~~~~e-~~Lw-~~~y~~~ie~~r~~~k   77 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADMTD-SKLGPAEVWTSRQALQDL---YQKMLVTDLEYALDKKVE-QDLW-NHAFKNQITTLQGQAK   77 (497)
T ss_dssp             HHHHHHHHHHHHHGGGTC-SSSCSSSSHHHHHHHHHH---HHHHHHHCHHHHHHHTHH-HHHH-HHHTHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHcCCCCHH-HHhhHHHHHHHHchHHHH---HHHHHHcChhhHHHHhHH-HHHH-HHHHHHHHHHHHHhcc
Confidence            467777888777 44444 777777777777777765   4444322221   11111 1111 1124456666666655


Q ss_pred             cccccCHHHHHHHHHHh--hCCCChHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCCHHHHHHHHhhccCCCh-hhHH
Q 044352          107 FIYRCNKFTFSIVLKAC--VGLLDIKKGKQVHAVATQMGFENDVSVGNALIDMYSKCGLLCSARRVFHGMFERDV-VSWT  183 (544)
Q Consensus       107 ~~~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~  183 (544)
                      ....++.......+..+  ...+.++.+...+....+.. +++...+..+...+.+.|+.+.|...+.....++. .++.
T Consensus        78 ~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~  156 (497)
T d1ya0a1          78 NRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYICQHCLV  156 (497)
T ss_dssp             CSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHHHHHHHH
T ss_pred             cccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCHHHHHH
Confidence            43333332222222111  22334444444444333332 34455666677777778888888777766554332 3566


Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHhhhCCCCCCHhHHHHHHHHHHc
Q 044352          184 SMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYARRGDSNAAFAFFSRMTAEGFVPDLVTWNAMISGFAQ  261 (544)
Q Consensus       184 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  261 (544)
                      .+...+...|++++|...|.+..+.. +-+...|+.+...+...|+..+|...|.+..... +|-..++..|...+.+
T Consensus       157 ~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         157 HLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHH
Confidence            67777788888888888888877663 4455678888888888888888888888877655 5666777777666543

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.17  E-value=9.3e-07  Score=67.88  Aligned_cols=97  Identities=11%  Similarity=0.003  Sum_probs=67.2

Q ss_pred             cCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHH
Q 044352          397 HGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMG  476 (544)
Q Consensus       397 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  476 (544)
                      +.+.+++|+..|+...+.  .|.+...+..++.+|...+++..+.+                      ..+.+++|+..|
T Consensus         9 r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e----------------------~~~~~~~Ai~~~   64 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISD----------------------AKQMIQEAITKF   64 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHH----------------------HHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhH----------------------HHHHHHHHHHHH
Confidence            444556666666666553  24445555555555544444333322                      234578999999


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHhcCC-----------hHHHHHHHHHHHhcC
Q 044352          477 EEFFEMGLRKPDGFVMLSNICAADGE-----------WHEAENLRKIMKEKN  517 (544)
Q Consensus       477 ~~~~~~~p~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~~~~~~  517 (544)
                      +++++++|+++.+|..+|.+|...|+           +++|.+.|+++++..
T Consensus        65 ~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~  116 (145)
T d1zu2a1          65 EEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ  116 (145)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccC
Confidence            99999999999999999999988764           688999999988654

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.16  E-value=4.8e-06  Score=62.29  Aligned_cols=91  Identities=15%  Similarity=0.073  Sum_probs=62.1

Q ss_pred             hHHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCC---CCCch-------hHHH
Q 044352           15 YLDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIP---NPNVF-------MLNW   83 (544)
Q Consensus        15 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~-------~~~~   83 (544)
                      .+..+...+.+.|++++|+..|+++++. |.+.. ++..++.+|.+.|++++|+..++.+.   +.+..       +|..
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~-~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELDPTNMT-YITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHH-HHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            3455667777778888888888877777 55566 77777777777777777777777755   22222       3444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 044352           84 MVMASAFTGNFQEAIGYFSLMRE  106 (544)
Q Consensus        84 l~~~~~~~~~~~~A~~~~~~~~~  106 (544)
                      +...+...+++++|++.|++...
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHh
Confidence            55556666777777777776665

>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=98.12  E-value=4.9e-06  Score=64.81  Aligned_cols=89  Identities=13%  Similarity=-0.064  Sum_probs=64.6

Q ss_pred             HHHHHhcCCHHHHHHHHHhCC----CCC----------ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC-------
Q 044352          428 VDMLCRSGRMVEAYDLLRQVP----MYV----------TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK-------  486 (544)
Q Consensus       428 ~~~~~~~g~~~~A~~~~~~~~----~~~----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-------  486 (544)
                      +..+...|++++|++.|++..    ..|          ...+|..++.+|...|++++|+..+++++++.|..       
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            334455566666666665542    111          12467788888999999999999999998864321       


Q ss_pred             ----chhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044352          487 ----PDGFVMLSNICAADGEWHEAENLRKIMKEK  516 (544)
Q Consensus       487 ----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  516 (544)
                          ..++..+|.+|...|++++|+..|+++++.
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence                235788999999999999999999998764

>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=98.08  E-value=4.9e-06  Score=58.28  Aligned_cols=67  Identities=13%  Similarity=-0.068  Sum_probs=57.8

Q ss_pred             ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC-------chhHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 044352          452 TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK-------PDGFVMLSNICAADGEWHEAENLRKIMKEKNV  518 (544)
Q Consensus       452 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  518 (544)
                      +...+..++..+.+.|++++|+.+|++++++.|.+       ..++..++.++.+.|++++|+..++++++.+.
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P   77 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCc
Confidence            34556678889999999999999999999986544       35789999999999999999999999998653

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.92  E-value=5.4e-05  Score=59.92  Aligned_cols=125  Identities=6%  Similarity=-0.063  Sum_probs=84.9

Q ss_pred             HHHHHHHhhccchhhhhhHHhHHHhhc-ccchhhHHHHHHHHhhcCCChHHHHHHhccCCCCCchhHHHHHHHHHhcCCH
Q 044352           16 LDCLLGKCMKSKALRQGKQVHALLCTN-DLNIFSLKSKLVGVYAGCGDVNSARLVFDKIPNPNVFMLNWMVMASAFTGNF   94 (544)
Q Consensus        16 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~   94 (544)
                      +..........|++++|.+.|.+++.. +.+.. .         .....+.+...-..+.+.....+..++..+...|++
T Consensus        14 ~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l-~---------~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~   83 (179)
T d2ff4a2          14 EKTAGVHAAAAGRFEQASRHLSAALREWRGPVL-D---------DLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRA   83 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTT-G---------GGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCccccc-c---------cCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCc
Confidence            344456788899999999999999988 32221 0         001111111111122223345677888888889999


Q ss_pred             HHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHH-----cCCCCChhHH
Q 044352           95 QEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQ-----MGFENDVSVG  151 (544)
Q Consensus        95 ~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  151 (544)
                      ++|+..++++++.. +-+...|..++.++...|+..+|.+.|+++.+     .|+.|...+.
T Consensus        84 ~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          84 SAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             hHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            99999999988853 23667888889999999999999988888744     5788876653

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.92  E-value=1e-05  Score=68.75  Aligned_cols=128  Identities=8%  Similarity=-0.097  Sum_probs=79.4

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 044352          361 GKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEA  440 (544)
Q Consensus       361 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  440 (544)
                      .+.|++++|+..+++.++.. +.+...+..+...++..|++++|...++...+.  .+.+...+..+...+...+..+++
T Consensus         7 L~~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           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHHH
Confidence            45678888888888887752 446677888888888888888888888887764  223344444455555444444443


Q ss_pred             HHHHHhC--CCCC-ChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHH
Q 044352          441 YDLLRQV--PMYV-TNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFV  491 (544)
Q Consensus       441 ~~~~~~~--~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  491 (544)
                      ..-....  ...| +...+...+..+...|+.++|...++++.+..|..+..+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~~  137 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLAN  137 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEET
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCcccc
Confidence            3322221  1122 2223334445566778888888888888887777665543

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.85  E-value=6.9e-05  Score=58.03  Aligned_cols=65  Identities=15%  Similarity=-0.038  Sum_probs=44.5

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhCC--------CCCC-----hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCC
Q 044352          422 EHYACVVDMLCRSGRMVEAYDLLRQVP--------MYVT-----NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRK  486 (544)
Q Consensus       422 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  486 (544)
                      ..|..++.+|...|++++|.+.+++..        ..++     ..++..++.+|...|++++|+..|++++++.|..
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~  133 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  133 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence            345566666666677666666665532        1111     2246677889999999999999999999986543

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.78  E-value=1.3e-05  Score=67.94  Aligned_cols=121  Identities=12%  Similarity=0.128  Sum_probs=89.6

Q ss_pred             HhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC-CCC-ChhHHHHHHHHHhhcCChHHH
Q 044352          395 CSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP-MYV-TNSMAGAFRNGCNIHGRRDLA  472 (544)
Q Consensus       395 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~g~~~~A  472 (544)
                      ..+.|++++|+..+++..+  ..|.+...+..++..|+..|++++|...++.+. ..| +...+..+...+...+..+++
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 ALSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHH
Confidence            4578999999999999988  457788999999999999999999999999874 334 455666666555555444444


Q ss_pred             HHHHHHHHHc-CCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          473 VTMGEEFFEM-GLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       473 ~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .......... +|++...+...+.++.+.|+.++|.+.++++.+..
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            3332222222 24444556667888999999999999999998764

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=97.54  E-value=0.031  Score=51.17  Aligned_cols=114  Identities=12%  Similarity=0.034  Sum_probs=61.3

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHH----HHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH
Q 044352          364 GMVDSSIELFERMLEEGMRANEVTLIS----VLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVE  439 (544)
Q Consensus       364 g~~~~A~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  439 (544)
                      .+.+.|...+....... ..+..-...    +.......+..+.+...+......   ..+.......+......+++..
T Consensus       228 ~d~~~a~~~l~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~w~~~~al~~~~~~~  303 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRG  303 (450)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHH
T ss_pred             cChhHHHHHHHhhhhcc-cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccc---ccchHHHHHHHHHHHHcCChHH
Confidence            45666666666665542 222221111    222223345556666666655442   2333444444444556677777


Q ss_pred             HHHHHHhCCCCCC--hhHHHHHHHHHhhcCChHHHHHHHHHHHH
Q 044352          440 AYDLLRQVPMYVT--NSMAGAFRNGCNIHGRRDLAVTMGEEFFE  481 (544)
Q Consensus       440 A~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  481 (544)
                      +...+..++..+.  ......++.++...|+.+.|..+|..+..
T Consensus       304 ~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~  347 (450)
T d1qsaa1         304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (450)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc
Confidence            7777777653221  23335566677777777777777777653

>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=97.27  E-value=0.012  Score=41.20  Aligned_cols=141  Identities=12%  Similarity=0.130  Sum_probs=92.7

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH
Q 044352          360 YGKHGMVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVE  439 (544)
Q Consensus       360 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  439 (544)
                      +.-.|..++..+++.+....   .+..-|+.++--....-+-+...+.++.+-+.|.+.|- .....++.++...+    
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C-~Nlk~vv~C~~~~n----   83 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKC-QNLKSVVECGVINN----   83 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGC-SCTHHHHHHHHHTT----
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhh-hcHHHHHHHHHHhc----
Confidence            34456677777777666653   34455566555555555555566666655432222211 11223333333333    


Q ss_pred             HHHHHHhCCCCCChhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 044352          440 AYDLLRQVPMYVTNSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAADGEWHEAENLRKIMKEKNVQ  519 (544)
Q Consensus       440 A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  519 (544)
                                 .+...+...+..+..+|+-+.-.++++.+++.+..+|..+..++.+|-+.|...++-+++.++-++|++
T Consensus        84 -----------~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          84 -----------TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             -----------CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             -----------chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence                       233444555567788999999999999999988778999999999999999999999999999998874

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=97.15  E-value=0.0028  Score=46.93  Aligned_cols=82  Identities=9%  Similarity=-0.072  Sum_probs=52.9

Q ss_pred             CCHHHHHHHHHhCCCCCChhHHHHHHHHHhh----cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHh----cCChHHH
Q 044352          435 GRMVEAYDLLRQVPMYVTNSMAGAFRNGCNI----HGRRDLAVTMGEEFFEMGLRKPDGFVMLSNICAA----DGEWHEA  506 (544)
Q Consensus       435 g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A  506 (544)
                      .+.++|.+++++.....++.+...+...|..    ..+.++|.++|+++.+.+  ++.+...|+.+|..    ..+.++|
T Consensus        37 ~~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A  114 (133)
T d1klxa_          37 INKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQA  114 (133)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             cCHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHH
Confidence            3455555555554333344555555554443    456788888888887765  46777778887776    3578888


Q ss_pred             HHHHHHHHhcCC
Q 044352          507 ENLRKIMKEKNV  518 (544)
Q Consensus       507 ~~~~~~~~~~~~  518 (544)
                      .++|++..+.|.
T Consensus       115 ~~~~~~Aa~~G~  126 (133)
T d1klxa_         115 VKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHCCC
Confidence            888888777664

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.04  E-value=0.0012  Score=47.04  Aligned_cols=73  Identities=12%  Similarity=-0.004  Sum_probs=45.3

Q ss_pred             CchhHHHHHHHHHHhcCC---HHHHHHHHHhCC-CCC-C-hhHHHHHHHHHhhcCChHHHHHHHHHHHHcCCCCchhHH
Q 044352          419 ISKEHYACVVDMLCRSGR---MVEAYDLLRQVP-MYV-T-NSMAGAFRNGCNIHGRRDLAVTMGEEFFEMGLRKPDGFV  491 (544)
Q Consensus       419 ~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~-~~~-~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  491 (544)
                      ++..+-..++.++.+..+   .++++.+++.+. ..| + ...+..++-+|.+.|++++|+++++.+++++|+|..+..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA~~  111 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  111 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHHHH
Confidence            445566666666665543   446666666653 222 2 245666666777777777777777777777777665543

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=96.87  E-value=0.16  Score=46.22  Aligned_cols=277  Identities=10%  Similarity=-0.027  Sum_probs=158.2

Q ss_pred             CChhHHHHHHHHHHhCCCHHHHHHHHhhccCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCCCCHhhHHHHHHHHH
Q 044352          146 NDVSVGNALIDMYSKCGLLCSARRVFHGMFERDVVSWTSMISGYCNVSKVDEAVVLFERMKLEGLEPNQFTYNAIIASYA  225 (544)
Q Consensus       146 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  225 (544)
                      .+...+-.-+......|+...|..+...+...........+....   +...+......   .  .++......+..++.
T Consensus       152 lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~---~p~~~~~~~~~---~--~~~~~~~~~~~~~l~  223 (450)
T d1qsaa1         152 QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLAN---NPNTVLTFART---T--GATDFTRQMAAVAFA  223 (450)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHH---CGGGHHHHHHH---S--CCCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHh---ChHhHHHHHhc---C--CCChhhhHHHHHHHH
Confidence            444444445555666777777777777766554444455554432   23333322211   1  233333333333333


Q ss_pred             h--cCChHHHHHHHHHhhhCCCCCCHhHHHH----HHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCc
Q 044352          226 R--RGDSNAAFAFFSRMTAEGFVPDLVTWNA----MISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGS  299 (544)
Q Consensus       226 ~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  299 (544)
                      +  ..+.+.+..++....... ..+...+..    +...+...+..+.+...+......+  .+.......+......++
T Consensus       224 rla~~d~~~a~~~l~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~  300 (450)
T d1qsaa1         224 SVARQDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGD  300 (450)
T ss_dssp             HHHHHCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTC
T ss_pred             HHhccChhHHHHHHHhhhhcc-cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCC
Confidence            3  357788888888776543 222222222    2223344566777888777766543  344444455555667788


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 044352          300 IQIGREIHALVCRMGLHIDVFTGSALIDMYSKCGSLKDARTLFEITRIKNVASWNAMIGCYGKHGMVDSSIELFERMLEE  379 (544)
Q Consensus       300 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  379 (544)
                      ...+...+..+... .........-+..++...|+.+.|...|..+....  +|...+.+- +.|..-..       ...
T Consensus       301 ~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~~--~fYG~LAa~-~Lg~~~~~-------~~~  369 (450)
T d1qsaa1         301 RRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQQR--GFYPMVAAQ-RIGEEYEL-------KID  369 (450)
T ss_dssp             HHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--SHHHHHHHH-HTTCCCCC-------CCC
T ss_pred             hHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcCC--ChHHHHHHH-HcCCCCCC-------CcC
Confidence            88888888776432 22235555677888889999999999998776542  344443322 22211000       000


Q ss_pred             CCC--CCH----HHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhCC
Q 044352          380 GMR--ANE----VTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCRSGRMVEAYDLLRQVP  448 (544)
Q Consensus       380 ~~~--~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  448 (544)
                      ..+  +..    ..-...+..+...|....|...|..+..  .  .+......++....+.|.++.|+....+..
T Consensus       370 ~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~--~--~~~~~~~~la~lA~~~g~~~~aI~a~~~~~  440 (450)
T d1qsaa1         370 KAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVK--S--KSKTEQAQLARYAFNNQWWDLSVQATIAGK  440 (450)
T ss_dssp             CCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHT--T--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             CCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHh--C--CCHHHHHHHHHHHHHCCChhHHHHHHHHHH
Confidence            000  000    0112334567788999999999988865  3  245566778888999999999999888775

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.69  E-value=0.016  Score=42.60  Aligned_cols=111  Identities=11%  Similarity=-0.017  Sum_probs=80.0

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----cCCHHHH
Q 044352          365 MVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVDMLCR----SGRMVEA  440 (544)
Q Consensus       365 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  440 (544)
                      ++++|++.|++..+.|...   ....+.  .....+.++|..++++..+. |   ++.....+...|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~~~---a~~~l~--~~~~~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEMF---GCLSLV--SNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCTT---HHHHHH--TCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCChh---hhhhhc--cccccCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHHH
Confidence            6778888888888876322   222222  24456788999999888764 3   45566667777664    4578899


Q ss_pred             HHHHHhCCCCCChhHHHHHHHHHhh----cCChHHHHHHHHHHHHcCC
Q 044352          441 YDLLRQVPMYVTNSMAGAFRNGCNI----HGRRDLAVTMGEEFFEMGL  484 (544)
Q Consensus       441 ~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p  484 (544)
                      .++|++....-++.+...+...|..    ..+.++|.++|+++.+++.
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            9999987655677777778777765    4689999999999998774

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.67  E-value=0.013  Score=41.56  Aligned_cols=68  Identities=15%  Similarity=0.132  Sum_probs=55.4

Q ss_pred             CCChhHHHHHHHHHhhcC---ChHHHHHHHHHHHHcCCCCc-hhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044352          450 YVTNSMAGAFRNGCNIHG---RRDLAVTMGEEFFEMGLRKP-DGFVMLSNICAADGEWHEAENLRKIMKEKN  517 (544)
Q Consensus       450 ~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  517 (544)
                      .+...+...++.++.+..   +.++|+.+++++++.+|.+. ..+..|+.+|.+.|++++|+.+++++++..
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            355667777888887654   56789999999998888664 688899999999999999999999998754

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=95.21  E-value=0.29  Score=34.16  Aligned_cols=68  Identities=9%  Similarity=0.068  Sum_probs=51.6

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCchHHHHHHHHHHHHcCCC
Q 044352          248 DLVTWNAMISGFAQSKRENEALKLFKGMLVSGIKPNNVTVTGVLQAGGLTGSIQIGREIHALVCRMGLH  316 (544)
Q Consensus       248 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  316 (544)
                      +...+...+..+.++|+-++-.++++.+.+.+ .+++.....+..+|.+.|+..++.+++.+..+.|..
T Consensus        85 ~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          85 LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            34455666777888888888888888877654 777778888888888888888888888888887753

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=90.32  E-value=0.7  Score=30.43  Aligned_cols=63  Identities=16%  Similarity=0.198  Sum_probs=49.3

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCchHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 044352          365 MVDSSIELFERMLEEGMRANEVTLISVLSACSHGGLVEKGLEIFRSMKERYGVKISKEHYACVVD  429 (544)
Q Consensus       365 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  429 (544)
                      +.-++.+-+..+....+.|++.+..+.+.+|.+.+++..|.++++.++.+.+  ++...|..++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHHH
Confidence            4446677777777778899999999999999999999999999999987633  34556665553

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=83.45  E-value=4.3  Score=26.61  Aligned_cols=62  Identities=13%  Similarity=0.082  Sum_probs=37.0

Q ss_pred             CHHHHHHHHHHHHhcccccCHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCCCChhHHHHHH
Q 044352           93 NFQEAIGYFSLMREFIYRCNKFTFSIVLKACVGLLDIKKGKQVHAVATQMGFENDVSVGNALI  155 (544)
Q Consensus        93 ~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  155 (544)
                      +.-++.+-++.+...++.|++......+++|.+.+++..|.++++.+.... .++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHH
Confidence            334555556666666666777777777777777777777777776665442 23344444443